<\/title><br \/>\n<meta charset=\"utf-8\"><br \/>\n<meta name=\"viewport\" content=\"width=device-width,initial-scale=1.0,maximum-scale=1.0,user-scalable=0,viewport-fit=cover\"><\/p>\n<style>\n*{margin:0;padding:0}html{-ms-text-size-adjust:100%;-webkit-text-size-adjust:100%;line-height:1.6}img{z-index:999;position:relative;max-width:100%;margin:10px 0;}body{letter-spacing:.034em}h1,h2,h3,h4,h5,h6{font-weight:400;font-size:16px}a{color:#576b95;text-decoration:none;-webkit-tap-highlight-color:rgba(0,0,0,0)}td,th{word-wrap:break-word;padding:5px 10px;border:1px solid #DDD;}table{margin-bottom:10px;border-collapse:collapse;display:table;width:100%!important;}.appmsg_skin_default .rich_media_area_primary{background-color:#fff}.appmsg_skin_default .rich_media_area_primary .weui-loadmore_line .weui-loadmore__tips{background-color:#fff}.rich_media_area_primary{padding:20px 16px 12px;background-color:#fafafa}@media (max-width:375px){.rich_media_area_primary{padding:20px 60px 15px 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#e7e7eb;}@supports(-webkit-overflow-scrolling:touch){.rich_media_title{font-weight:700}}.rich_media_meta{display:inline-block;vertical-align:middle;padding:0 0 10px 0;font-size:15px;-webkit-tap-highlight-color:rgba(0,0,0,0)}.rich_media_meta.icon_appmsg_tag{margin-right:0px}.rich_media_meta.meta_tag_text{margin-right:0}.rich_media_meta_list em{font-style:normal}.rich_media_meta_text{color:#a5a5a5;}p{margin:0;}.msgBox{margin-top:20px;padding-top:20px;padding-left:50px;overflow:hidden;border-top:2px dashed #09a2ff;}.msg{padding-top:7px;clear:both;}.msgBody{float:right;width:100%;margin-left:55px;padding-bottom:15px;border-bottom:1px dashed #e0e0e0;}.userHeadImg{float:left;margin-left:-50px;}.userHeadImg img{width:40px;height:40px;margin-right:10px;border-radius:3px;}.userName{color:#888888;line-height:24px;font-size:14px;margin:5px 0 5px 0;height:24px;}.replyBody,.autherBody{color:#565656;font-size:15px;}.replyIcon{border-left:4px solid #33ab01;margin-right:5px;}.ad{text-decoration:none;color:#d6d4d4;font-size:12px;}.msgBodyReply{padding-top:5px;}.userName span{float:right;color:#afafaf;font-size:14px;}code{text-align:left;font-size:14px;display:block;white-space:pre;display:-webkit-box;display:-webkit-flex;display:flex;position:relative;}.code-snippet__fix{font-size:14px;margin:10px 0;display:block;color:#333;position:relative;background-color:rgba(0,0,0,0.03);border:1px solid #f0f0f0;border-radius:2px;display:-webkit-box;display:-webkit-flex;display:flex;padding-left:25px;line-height:26px}.code-snippet__fix code{text-align:left;font-size:14px;display:block;white-space:pre;display:-webkit-box;display:-webkit-flex;display:flex;position:relative;font-family:Consolas,\"Liberation 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0;align-items:center}.flex_bd{padding-left:14px;}.account_nickname{display:inline-block;vertical-align:middle;line-height:1.2;color:#576b95;font-size:14px}.account_desc{overflow:hidden;text-overflow:ellipsis;display:-webkit-box;-webkit-box-orient:vertical;-webkit-line-clamp:1;color:rgba(0,0,0,0.3);font-size:14px;line-height:1.2;padding-top:.4em}.msg_source_url{text-align:left;word-break:break-all;margin-top:20px;}.msg_source_url a{padding-right:10px;}.msg_source_url .url_text{color:#a8a8a8;}.video-desc{font-size:14px;margin-top:15px;color:#6c6c6c;}.msg_source_url{text-align:left;}.original_primary_card_tips{color:rgba(0,0,0,0.3);line-height:1.4;font-size:15px;}.weui-flex__item{margin-bottom:20px;padding:20px 16px;margin-top:16px;line-height:1.4;align-items:center;background-color:#f7f7f7;border-radius:8px;position:relative;}.original_primary_desc{color:rgba(0,0,0,0.5);font-size:14px;padding-top:4px;width:auto;overflow:hidden;text-overflow:ellipsis;}.msgBodyReplyList{border-top:1px solid #e1e1e1;margin-top:10px;}.msgBodyReplyListTop{border-top:0;}.reply_like_num{float:right;font-size:14px;color:#c7c7c7;}.msgData{margin-top:20px;color:#626262;}.msgData span{font-size:14px;padding-right:15px;}.msgData .likes{float:right;padding-right:0;}.js_text_content p{font-size:18px;}.rich_media_meta_link{font-size:15px;}blockquote {padding-left: 10px;border-left: 3px solid #dbdbdb;color: rgba(0,0,0,0.5);font-size: 15px;padding-top: 4px;margin: 1em 0;}.video_iframe{width:500px;height:400px;}.blockquote_info{color:#b5b5b5;margin-top:10px;}#copyright_logo{color:#bdbdbd;}.rich_media_meta_list{margin-bottom:10px;}.reprint{background:#efefef;border-radius:5px;padding:8px;color:#1f1f1f;}.reprint a{word-break:break-all;}.topic{color:#8e8e8e;background:#f7f7f7;border-radius:5px;padding:10px 8px;}.topic a{padding-right:5px;}.topic p{margin-bottom:5px;}\n<\/style>\n<link href=\"https:\/\/www.juyifx.cn\/config\/css\/wxArticle.css\" rel=\"stylesheet\"\/>\n<\/head><script>\nvar data={\"mp\":\"\u751f\u4fe1\u679c\",\"title\":\"Kmergenie + GapCloser\u8ba9\u4f60\u7684\u57fa\u56e0\u7ec4\u7ec4\u88c5\u4e8b\u534a\u529f\u500d\",\"time\":\"2023-12-07 19:00:46\",\"timeStamp\":\"1701946846\"};\n<\/script><br \/>\n<body><\/p>\n<div class=\"rich_media\">\n<h1 class=\"rich_media_title\" id=\"activity-name\"><a href=\"http:\/\/mp.weixin.qq.com\/s?__biz=Mzg3OTg3MjQyNg==&mid=2247497268&idx=1&sn=ea4f6e967dfa7b4d6a895a9e6d538df7&chksm=cf7f66f1f808efe7a389f14175ddc835ac917ed7dadf7da73c3987bc6c837b63a23f4517cfed#rd\" target=\"_blank\" rel=\"noopener\">Kmergenie + GapCloser\u8ba9\u4f60\u7684\u57fa\u56e0\u7ec4\u7ec4\u88c5\u4e8b\u534a\u529f\u500d<\/a><\/h1>\n<div id=\"meta_content\" class=\"rich_media_meta_list\"><span id=\"copyright_logo\" class=\"wx_tap_link js_wx_tap_highlight rich_media_meta icon_appmsg_tag appmsg_title_tag weui-wa-hotarea\">\u539f\u521b <\/span><span class=\"rich_media_meta rich_media_meta_text\">\u5c0f\u679c <\/span><span class=\"rich_media_meta rich_media_meta_nickname\" id=\"profileBt\"><a href=\"javascript:void(0);\" class=\"wx_tap_link js_wx_tap_highlight weui-wa-hotarea\" id=\"js_name\">\u751f\u4fe1\u679c <\/a><\/span><em id=\"publish_time\" class=\"rich_media_meta rich_media_meta_text\">2023-12-07 19:00:46<\/em><\/div>\n<p><content><\/p>\n<div class=\"topic\">\n<p>\u6536\u5f55\u4e8e\u8bdd\u9898<\/p>\n<p><a href=\"https:\/\/mp.weixin.qq.com\/mp\/appmsgalbum?__biz=Mzg3OTg3MjQyNg==&action=getalbum&album_id=2664545260517294084#wechat_redirect\" title=\"\u751f\u4fe1\u5b9e\u64cd\" target=\"_blank\" rel=\"noopener\">#\u751f\u4fe1\u5b9e\u64cd<\/a><a href=\"https:\/\/mp.weixin.qq.com\/mp\/appmsgalbum?__biz=Mzg3OTg3MjQyNg==&action=getalbum&album_id=3138206666342268940#wechat_redirect\" title=\"\u751f\u4fe1\u5c0f\u767d\u76f8\u5173\" target=\"_blank\" rel=\"noopener\">#\u751f\u4fe1\u5c0f\u767d\u76f8\u5173<\/a><\/p>\n<\/div>\n<p style=\"text-align: center;\" data-mpa-powered-by=\"yiban.io\"><strong><span style=\"color: rgb(0, 122, 170);\"><\/span><\/strong><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-imgfileid=\"100012758\" data-ratio=\"0.23333333333333334\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_rE2v0O5WiaUDJjgv5bxK2G1ePHyH2g-39.jpg?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_jpg\/zcicibWZessAysHY49vPGCraibakiaNq6hQgn8C5MfvVLQGxlNZPEia2PajKAzrE2v0O5WiaUDJjgv5bxK2G1ePHyH2g\/640?wx_fmt=jpeg'\" data-type=\"jpeg\" data-w=\"1080\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<h1 style=\"text-indent: 0em;\"><span style=\"font-size: 15px;text-indent: 0em;letter-spacing: 0.034em;font-family: \u5b8b\u4f53;font-variant-numeric: normal;font-variant-east-asian: normal;font-variant-alternates: normal;font-variant-position: normal;\">\u5927\u5bb6\u597d\uff0c\u5c0f\u679c\u6700\u8fd1\u5728\u7528SOAP denovo2\u5bf9\u4e8c\u4ee3\u6d4b\u5e8f\u7ed3\u679c\u8fdb\u884c\u7ec4\u88c5\uff0c\u5728SOAP denovo2\u7684\u547d\u4ee4\u4e2d\u6709\u4e00\u4e2a\u53c2\u6570k-mer\uff0c\u90a3\u4e48\u95ee\u9898\u6765\u4e86\uff0ck-mer\u4ee3\u8868\u4ec0\u4e48\u5462\uff1f\u8be5\u5982\u4f55\u8bbe\u7f6e\u7ed3\u679c\u624d\u4f1a\u66f4\u597d\u5462\uff1f\u62fc\u63a5\u540e\u7684coting\u5e8f\u5217\u4e2d\u6709\u4e00\u4e9b\u672a\u77e5\u78b1\u57faN\uff0c\u53ef\u4e0d\u53ef\u4ee5\u51cf\u5c11\u672a\u77e5\u78b1\u57fa\u5462\uff1f\u5c0f\u679c\u4eca\u5929\u7ed9\u5927\u5bb6\u63a8\u8350\u7684<\/span><span style=\"font-size: 15px;font-family: \u7b49\u7ebf;text-indent: 0em;letter-spacing: 0.034em;font-variant-numeric: normal;font-variant-east-asian: normal;font-variant-alternates: normal;font-variant-position: normal;\">k-mer\u9891\u7387\u7edf\u8ba1\u8f6f\u4ef6kmergenie\u548c\u8865\u6d1e\u5de5\u5177GapCloser\u5c31\u53ef\u4ee5\u5f88\u597d\u7684\u5e2e\u6211\u4eec\u89e3\u51b3\u8fd9\u4e24\u4e2a\u96be\u9898\u3002<\/span><br \/><\/h1>\n<h2 style=\"text-indent: 0em;\"><strong><span style=\"font-size: 15px;color: rgb(0, 122, 170);\"><span style=\"font-size: 15px;font-family: "Times New Roman";font-variant: normal;text-transform: none;\">1<\/span><span style=\"font-size: 15px;font-family: \u5b8b\u4f53;font-variant: normal;text-transform: none;\">.<\/span><span style=\"font-size: 15px;font-family: "Times New Roman";font-variant: normal;text-transform: none;\"> kmergenie<\/span><br \/>\n <\/span><\/strong><span style=\"font-size: 15px;\"><\/span><\/h2>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><strong><span style=\"color: rgb(171, 25, 66);\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\">1.1 <\/span><span style=\"font-size: 15px;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;\">kmergenie\u662f\u4ec0\u4e48\uff1f<\/span><\/span><\/strong><span style=\"font-size: 15px;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;\"><\/span><\/p>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\">kmergenie\u662f\u4e00\u4e2a\u5f00\u6e90\u7684\u8f6f\u4ef6\u5de5\u5177\uff0c\u7528\u4e8e\u4f30\u8ba1\u6700\u4f73k-mer\u7684\u5927\u5c0f\uff0c\u5b83\u6709\u52a9\u4e8e\u540e\u7eed\u7684\u57fa\u56e0\u7ec4\u7ec4\u88c5\u3002k-mer\u662f\u6307\u957f\u5ea6\u4e3ak\u7684DNA\u5e8f\u5217\uff0c\u5b83\u53ef\u4ee5\u4ece\u6d4b\u5e8f\u6570\u636e\u4e2d\u63d0\u53d6\u51fa\u6765\u3002\u4e0d\u540c\u7684k-mer\u5927\u5c0f\u4f1a\u5f71\u54cd\u7ec4\u88c5\u7684\u8d28\u91cf\u548c\u6548\u7387\uff0c\u56e0\u6b64\u9009\u62e9\u4e00\u4e2a\u5408\u9002\u7684k-mer\u5927\u5c0f\u662f\u5f88\u91cd\u8981\u7684\u3002kmergenie\u53ef\u4ee5\u6839\u636e\u6d4b\u5e8f\u6570\u636e\u7684\u7279\u5f81\uff0c\u81ea\u52a8\u8ba1\u7b97\u51fa\u4e00\u4e2a\u6700\u4f73\u7684k-mer\u5927\u5c0f\uff0c\u4ece\u800c\u63d0\u9ad8\u7ec4\u88c5\u7684\u51c6\u786e\u6027\u548c\u901f\u5ea6\u3002<\/span><\/p>\n<p style=\"text-align: left;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"color: rgb(171, 25, 66);font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\"><strong>1.2 \u5982\u4f55\u4e0b\u8f7d\u4e0e\u5b89\u88c5kmergenie\uff1f<\/strong><\/span><\/p>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\">kmergenie\u53ef\u4ee5\u5728Linux\u548cMac OS X\u7cfb\u7edf\u4e0a\u8fd0\u884c\uff0c\u5b83\u9700\u8981\u4e00\u4e9b\u4f9d\u8d56\u8f6f\u4ef6\uff0c\u5982gcc\uff0cmake\uff0cpython\u548czlib\u3002<\/span><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"properties\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">wget<\/span> <span class=\"code-snippet__string\">http:\/\/kmergenie.bx.psu.edu\/kmergenie-1.7051.tar.gz<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">tar<\/span> <span class=\"code-snippet__string\">-xzvf kmergenie-1.7051.tar.gz <\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">cd<\/span> <span class=\"code-snippet__string\">kmergenie-1.7051<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">python<\/span> <span class=\"code-snippet__string\">setup.py install<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u6dfb\u52a0\u53ef\u6267\u884c\u6743\u9650<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">chmod<\/span> <span class=\"code-snippet__string\">-R 755 *<\/span><\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012756\" data-ratio=\"0.4638888888888889\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_wCtgnNKSB0S3F1gtFAEPjBibcmJsWw.png?resize=553%2C256\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian3r3y8cnsLk77Q02vmGVuEV8ouBwCtgnNKSB0S3F1gtFAEPjBibcmJsWw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" height=\"256 .7999572753906\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><\/span><\/p>\n<p style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\">\u8fd9\u6837\u5c31\u5b8c\u6210\u4e86kmergenie\u7684\u5b89\u88c5\uff0c\u53ef\u4ee5\u4f7f\u7528\u4ee5\u4e0b\u547d\u4ee4\u6765\u6d4b\u8bd5\u662f\u5426\u6210\u529f\uff1a<\/span><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"nginx\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attribute\">kmergenie<\/span> --version<\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-top: 5pt;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);\">\u5982\u679c\u4f60\u770b\u5230\u4e86kmergenie\u7684\u7248\u672c\u53f7\uff0c\u90a3\u4e48\u606d\u559c\u4f60\uff0c\u4f60\u5df2\u7ecf\u6210\u529f\u5b89\u88c5\u4e86kmergenie\uff01 <br \/><\/span><\/span><span style=\"color: rgb(171, 25, 66);font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\"><strong>1.3 \u5982\u4f55\u8fd0\u884ckmergenie\uff1f<\/strong><\/span><\/p>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"line-height: 150%;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);\">\u8981\u8fd0\u884ckmergenie\uff0c\u4f60\u9700\u8981\u51c6\u5907\u4e00\u4e9b\u8f93\u5165\u6587\u4ef6\uff0c\u5305\u62ec\u6d4b\u5e8f\u6570\u636e\u548c\u914d\u7f6e\u6587\u4ef6\u3002\u6d4b\u5e8f\u6570\u636e\u53ef\u4ee5\u662fFASTA\u6216FASTQ\u683c\u5f0f\u7684\u6587\u4ef6\uff0c\u4e5f\u53ef\u4ee5\u662f\u538b\u7f29\u8fc7\u7684.gz\u6216.bz2\u683c\u5f0f\u7684\u6587\u4ef6\u3002\u914d\u7f6e\u6587\u4ef6\u662f\u4e00\u4e2a\u6587\u672c\u6587\u4ef6\uff0c\u5176\u4e2d\u6bcf\u4e00\u884c\u5305\u542b\u4e00\u4e2a\u6d4b\u5e8f\u6570\u636e\u6587\u4ef6\u7684\u8def\u5f84\u548c\u76f8\u5e94\u7684\u6743\u91cd\u3002\u6743\u91cd\u662f\u4e00\u4e2a\u4ecb\u4e8e0\u548c1\u4e4b\u95f4\u7684\u6570\u503c\uff0c\u8868\u793a\u8be5\u6587\u4ef6\u5728\u603b\u6d4b\u5e8f\u6570\u636e\u4e2d\u6240\u5360\u7684\u6bd4\u4f8b\u3002\u4f8b\u5982\uff0c\u5982\u679c\u4f60\u6709\u4e24\u4e2a\u6d4b\u5e8f\u6570\u636e\u6587\u4ef6\uff0c\u4e00\u4e2a\u662f100M\uff0c\u53e6\u4e00\u4e2a\u662f150M\uff0c\u90a3\u4e48\u4f60\u53ef\u4ee5\u7ed9\u7b2c\u4e00\u4e2a\u6587\u4ef6\u5206\u914d0.4\u7684\u6743\u91cd\uff0c\u7ed9\u7b2c\u4e8c\u4e2a\u6587\u4ef6\u5206\u914d0.6\u7684\u6743\u91cd\u3002\u914d\u7f6e\u6587\u4ef6\u7684\u793a\u4f8b\u5982\u4e0b\uff1a<\/span> <\/span><\/p>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-imgfileid=\"100012767\" data-ratio=\"0.38981481481481484\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_IWicymEetCc6Enf2BkUE4Yz1Ya5e5w-7.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyuYsqlJnQUJvnS2iciaDibtfbdV0VmHlriaSjYwjFPLp1BLjokHIWicymEetCc6Enf2BkUE4Yz1Ya5e5w\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;font-size: 15px;text-wrap: wrap;letter-spacing: 0.578px;text-align: center;\" data-recalc-dims=\"1\" \/><\/span><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\"><code><span class=\"code-snippet_outer\">\/home\/user\/seq1.fastq 0.4 <\/span><\/code><code><span class=\"code-snippet_outer\">\/home\/user\/seq2.fastq.gz 0.6<\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"line-height: 150%;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\">\u5f53\u4f60\u51c6\u5907\u597d\u8f93\u5165\u6587\u4ef6\u540e\uff0c\u5c31\u53ef\u4ee5\u4f7f\u7528\u4ee5\u4e0b\u547d\u4ee4\u6765\u8fd0\u884ckmergenie\uff1a<\/span><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"css\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__selector-tag\">kmergenie<\/span> <span class=\"code-snippet__selector-tag\">config<\/span><span class=\"code-snippet__selector-class\">.txt<\/span> <span class=\"code-snippet__selector-tag\">-o<\/span> <span class=\"code-snippet__selector-tag\">output<\/span><\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"line-height: 150%;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\">\u5176\u4e2dconfig.txt\u662f\u914d\u7f6e\u6587\u4ef6\u7684\u8def\u5f84\uff0c-o output\u662f\u6307\u5b9a\u8f93\u51fa\u76ee\u5f55\u7684\u9009\u9879\u3002\u4e5f\u53ef\u4ee5\u4f7f\u7528\u5176\u4ed6\u4e00\u4e9b\u9009\u9879\u6765\u8c03\u6574kmergenie\u7684\u53c2\u6570\uff0c\u5982-k\u6307\u5b9a\u6700\u5c0f\u548c\u6700\u5927\u7684k-mer\u5927\u5c0f\uff0c-l\u6307\u5b9a\u8f93\u51fa\u7ed3\u679c\u7684\u683c\u5f0f\u7b49\u3002\u4f60\u53ef\u4ee5\u4f7f\u7528\u4ee5\u4e0b\u547d\u4ee4\u6765\u67e5\u770b\u6240\u6709\u53ef\u7528\u7684\u9009\u9879\uff1a<\/span><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"bash\"><code><span class=\"code-snippet_outer\">kmergenie --<span class=\"code-snippet__built_in\">help<\/span><\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"line-height: 150%;font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012755\" data-ratio=\"0.2908912830558276\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_gDTHQdaJon3e8IyP4eCxhUFG7mgfvA.png?resize=553%2C161\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian35f4qKjgZxiaj2PjMFsTeXSf0dgDTHQdaJon3e8IyP4eCxhUFG7mgfvA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1021\" height=\"161 .06997680664062\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><span style=\"text-indent: 0em;letter-spacing: 0.034em;\"><\/span><\/span><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"diff\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">--diploid\uff1a\u4f7f\u7528\u4e8c\u500d\u4f53\u6a21\u578b\uff08\u9ed8\u8ba4\u503c\uff1a\u5355\u500d\u4f53\u6a21\u578b\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">--one-pass\uff1a\u8df3\u8fc7\u7b2c\u4e8c\u6b21\u4f20\u9012\u4ee5\u4f30\u8ba12 bp\u5206\u8fa8\u7387\u4e0b\u7684k\uff08\u9ed8\u8ba4\u503c\uff1a\u4e24\u6b21\u4f20\u9012\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">-k\uff1a\u8981\u8003\u8651\u7684\u6700\u5927k-mer\u5927\u5c0f\uff08\u9ed8\u8ba4\u503c\uff1a121\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">-l\uff1a\u8981\u8003\u8651\u7684\u6700\u5c0fk-mer\u5927\u5c0f\uff08\u9ed8\u8ba4\u503c\uff1a15\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">-s\uff1a\u8fde\u7eedkmer\u5927\u5c0f\u4e4b\u95f4\u7684\u95f4\u9694\uff08\u9ed8\u8ba4\u503c\uff1a10\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">-e\uff1ak-mer\u91c7\u6837\u503c\uff08\u9ed8\u8ba4\u503c\uff1a\u81ea\u52a8\u68c0\u6d4b\u4ee5\u4f7f\u7528\u7ea6200 MB\u5185\u5b58\/\u7ebf\u7a0b\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">-t\uff1a\u7ebf\u7a0b\u6570\uff08\u9ed8\u8ba4\u503c\uff1a\u6838\u5fc3\u6570\u51cf\u4e00\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">-o\uff1a\u8f93\u51fa\u6587\u4ef6\u7684\u524d\u7f00\uff08\u9ed8\u8ba4\u503c\uff1a\u76f4\u65b9\u56fe\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">--debug\uff1aR\u811a\u672c\u7684\u5f00\u53d1\u4eba\u5458\u8f93\u51fa<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">--orig-hist\uff1a\u65e7\u7248\u76f4\u65b9\u56fe\u4f30\u8ba1\u65b9\u6cd5\uff08\u901f\u5ea6\u8f83\u6162\uff0c\u51c6\u786e\u6027\u8f83\u4f4e\uff09\u3002<\/span><\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><span style=\"color: rgb(171, 25, 66);font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\"><strong>1.4 \u5982\u4f55\u89e3\u8bfbkmergenie\u7ed3\u679c\u6587\u4ef6\uff1f <\/strong><\/span><span style=\"font-size: 15px;\"> <\/span><o:page><\/o:page><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-top: 5pt;margin-bottom: 5pt;line-height: 150%;text-indent: 0em;\"><span style=\"line-height: 150%;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\">\u5f53\u8fd0\u884c\u5b8ckmergenie\u540e\uff0c\u4f1a\u5728\u8f93\u51fa\u76ee\u5f55\u4e2d\u770b\u5230\u4e00\u4e9b\u7ed3\u679c\u6587\u4ef6\uff0c\u5982histograms.pdf, report.html, best_k.txt\u7b49\u3002<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-top: 5pt;margin-bottom: 5pt;line-height: 150%;text-indent: 0em;\"><span style=\"line-height: 150%;font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012754\" data-ratio=\"0.08055555555555556\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_Zx6212zFQrVAicadtCSM1g2Sv4CuWA.png?resize=548%2C44\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian3hViauSXX3hRB5tow2Wib9CIS8G9Zx6212zFQrVAicadtCSM1g2Sv4CuWA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" height=\"44 .27000427246094\" width=\"548 .010009765625\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-top: 5pt;margin-bottom: 5pt;line-height: 150%;text-indent: 0em;\"><span style=\"line-height: 150%;font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\">histograms.pdf\u662f\u4e00\u4e2a\u56fe\u5f62\u6587\u4ef6\uff0c\u663e\u793a\u4e86\u4e0d\u540ck-mer\u5927\u5c0f\u4e0b\u7684\u9891\u7387\u5206\u5e03\u60c5\u51b5\u3002report.html\u662f\u4e00\u4e2a\u7f51\u9875\u6587\u4ef6\uff0c\u5c55\u793a\u4e86\u4e0d\u540ck-mer\u5927\u5c0f\u4e0b\u7684\u7ec4\u88c5\u7edf\u8ba1\u4fe1\u606f\uff0c\u5982N50, L50, \u5e73\u5747\u957f\u5ea6\u7b49\u3002best_k.txt\u662f\u4e00\u4e2a\u6587\u672c\u6587\u4ef6\uff0c\u5305\u542b\u4e86kmergenie\u63a8\u8350\u7684\u6700\u4f73k-mer\u5927\u5c0f\u3002<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012757\" data-ratio=\"0.6657407407407407\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_nVyk0zB6n6nkYl8LcyBh0h13hhicHw.png?resize=553%2C368\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian3yEEoico6t7TkIo4RYg8cm1aSEicnVyk0zB6n6nkYl8LcyBh0h13hhicHw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" height=\"368 .739990234375\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-top: 5pt;margin-bottom: 5pt;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"line-height: 150%;font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);\">kmergenie\u4f30\u8ba1\u4e86\u57fa\u56e0\u7ec4\u7684\u5927\u5c0f<\/span><span style=\"line-height: 150%;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(17, 17, 17);\">\u4e3a38120637 bp\u3002<\/span><span style=\"line-height: 150%;font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);\">kmergenie\u63a8\u8350\u4e86\u6700\u4f73\u7684k-mer\u5927\u5c0f\u4e3a61\uff0c\u8fd9\u4e2a\u503c\u662f\u6839\u636eN50\u548c\u603b\u957f\u5ea6\u4e24\u4e2a\u6307\u6807\u7efc\u5408\u8003\u8651\u7684\u3002N50\u662f\u6307\u80fd\u8986\u76d6\u4e00\u534a\u57fa\u56e0\u7ec4\u957f\u5ea6\u7684\u6700\u77ed\u7247\u6bb5\u7684\u5e73\u5747\u957f\u5ea6\uff0c\u8d8a\u5927\u8d8a\u597d\u3002\u603b\u957f\u5ea6\u662f\u6307\u6240\u6709\u7247\u6bb5\u7684\u957f\u5ea6\u4e4b\u548c\uff0c\u8d8a\u63a5\u8fd1\u57fa\u56e0\u7ec4\u5927\u5c0f\u8d8a\u597d\u3002<\/span> <\/span><o:page><\/o:page><\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012761\" data-ratio=\"0.44722222222222224\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_OATPtcN6IajUicQxN0DlB9icqftfBw.png?resize=553%2C228\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian3T4kzS1OpI4juzTEj8of0QBymmCOATPtcN6IajUicQxN0DlB9icqftfBw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" height=\"228 .00001525878906\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012760\" data-ratio=\"0.2712962962962963\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/8_YicV9goEVvUKUAPicV3Cj0ycszagow.png?resize=553%2C150\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian3OECBMMZAyQBhHQatAsia1kiaF9CmYicV9goEVvUKUAPicV3Cj0ycszagow\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" height=\"150 .39999389648438\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"line-height: 150%;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(17, 17, 17);\">\u4e0a\u56fe\u662f\u4e00\u4e2a\u5173\u4e8ek\u503c\u7684\u6837\u672c\u76f4\u65b9\u56fe\u548c\u62df\u5408\u7684\u56fe\u3002\u6bcf\u4e2a\u56fe\u90fd\u6709\u4e00\u4e2a\u76f4\u65b9\u56fe\u548c\u4e00\u6761\u6298\u7ebf\u56fe\u3002\u7ea2\u7ebf\u662f\u76f4\u65b9\u56fe\u7684\u5b8c\u6574\u7edf\u8ba1\u6a21\u578b\u62df\u5408\uff0c\u84dd\u7ebf\u662f\u5f02\u8d28k-mer\u62df\u5408\uff0c\u7eff\u7ebf\u662f\u540c\u8d28k-mer\u62df\u5408\u3002\u56fe\u7684x\u8f74\u8868\u793a\u4e30\u5ea6\uff0cy\u8f74\u8868\u793ak-mer\u6570\u91cf\u3002<\/span><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);\">KmerGenie\u7684\u7ed3\u679c\u4e3b\u8981\u4f9d\u8d56\u4e8e\u76f4\u65b9\u56fe\u7684\u5f62\u72b6\u548c\u5cf0\u503c\uff0c\u76f4\u65b9\u56fe\u53cd\u6620\u4e86\u4e0d\u540ck-mer\u5927\u5c0f\u4e0b\uff0c\u51fa\u73b0\u9891\u7387\u4e3ax\u7684k-mer\u6709\u591a\u5c11\u4e2a\u3002\u7406\u60f3\u60c5\u51b5\u4e0b\uff0c\u76f4\u65b9\u56fe\u5e94\u8be5\u5448\u73b0\u4e00\u4e2a\u5355\u5cf0\u5206\u5e03\uff0c\u5cf0\u503c\u5bf9\u5e94\u4e8e\u771f\u5b9e\u7684k-mer\u6570\u91cf\uff0c\u5cf0\u503c\u8d8a\u9ad8\u8d8a\u5c16\u9510\uff0c\u8868\u793a\u6570\u636e\u8d28\u91cf\u8d8a\u597d\uff0c\u566a\u97f3\u8d8a\u5c11\u3002\u5982\u679c\u76f4\u65b9\u56fe\u5448\u73b0\u591a\u5cf0\u5206\u5e03\uff0c\u53ef\u80fd\u662f\u7531\u4e8e\u6d4b\u5e8f\u9519\u8bef\u3001\u91cd\u590d\u5e8f\u5217\u3001\u6742\u5408\u57fa\u56e0\u7ec4\u7b49\u56e0\u7d20\u5bfc\u81f4\u7684\u3002KmerGenie\u4f1a\u6839\u636e\u76f4\u65b9\u56fe\u7684\u5f62\u72b6\u548c\u5cf0\u503c\uff0c\u9009\u62e9\u4e00\u4e2a\u6700\u4f73\u7684k-mer\u5927\u5c0f\uff0c\u8fd9\u4e2a\u5927\u5c0f\u901a\u5e38\u662f\u5728\u5cf0\u503c\u9644\u8fd1\uff0c\u5e76\u4e14\u80fd\u591f\u6700\u5927\u5316\u7ec4\u88c5\u8fde\u901a\u5ea6\u3002\u7ec4\u88c5\u8fde\u901a\u5ea6\u662f\u6307\u7528\u8be5k-mer\u5927\u5c0f\u8fdb\u884c\u7ec4\u88c5\u540e\uff0c\u5f97\u5230\u7684\u6700\u957f\u8fde\u7eed\u5e8f\u5217\uff08contig\uff09\u7684\u957f\u5ea6\u3002KmerGenie\u8fd8\u4f1a\u6839\u636e\u5cf0\u503c\u548c\u6d4b\u5e8f\u6df1\u5ea6\uff0c\u4f30\u8ba1\u57fa\u56e0\u7ec4\u7684\u5927\u5c0f\uff0c\u8fd9\u4e2a\u5927\u5c0f\u662f\u4e0d\u8003\u8651\u91cd\u590d\u5e8f\u5217\u548c\u95f4\u9699\uff08gap\uff09\u7684\u7406\u8bba\u5927\u5c0f\u3002<\/span> <\/span><o:page><\/o:page><\/section>\n<h2 style=\"text-indent: 0em;\"><strong><span style=\"font-size: 15px;color: rgb(0, 122, 170);\"><span style=\"font-size: 15px;font-family: \u5b8b\u4f53;font-variant: normal;text-transform: none;\">2.<\/span><span style=\"font-size: 15px;font-family: "Times New Roman";font-variant: normal;text-transform: none;\"> GapCloser<\/span><br \/>\n <\/span><\/strong><span style=\"font-size: 15px;\"><\/span><\/h2>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: "Times New Roman";font-variant: normal;text-transform: none;font-size: 15px;\">GapCloser\u662f\u4e00\u4e2a\u7528\u4e8e\u586b\u8865\u57fa\u56e0\u7ec4\u5e8f\u5217\u4e2dN\u78b1\u57fa\u7a7a\u7f3a\u7684\u5de5\u5177\u3002\u5b83\u53ef\u4ee5\u4f7f\u7528ONT reads\u3001HiFi reads\u6216\u8005\u662f\u521d\u6b65\u7ec4\u88c5\u7684contigs\u8fdb\u884c\u57fa\u56e0\u7ec4\u7684gap filling\u3002\u6b64\u5916\uff0c\u8be5\u5de5\u5177\u53ef\u8c03\u7528racon\u4ee5\u53capilon\u5904\u7406\u539f\u59cbreads\uff0c\u56e0\u6b64\u4e5f\u53ef\u4ee5\u8f93\u5165\u4e09\u4ee3\u7684raw reads1\u3002\u9700\u8981\u6ce8\u610f\u7684\u662f\uff0c\u6240\u6709\u7684TGS reads\u8f93\u5165\u6587\u4ef6\uff0c\u53ea\u80fd\u662ffasta\u683c\u5f0f\uff0cfastq\u4f1a\u5bfc\u81f4\u7a0b\u5e8f\u5d29\u6e83\u3002<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\">\u5728\u5b89\u88c5\u524d\u8981\u5148\u5b89\u88c5\u914d\u7f6e\u597d\u4ed6\u7684\u4f9d\u8d56\u5305gcc 4.4+\u3001make 3.8+\u548cminimap2\u3002<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><strong><span style=\"font-size: 15px;color: rgb(171, 25, 66);\"><span style=\"font-size: 15px;color: rgb(171, 25, 66);font-family: "Times New Roman";font-variant: normal;text-transform: none;font-weight: bold;\">2.1 <\/span><span style=\"font-size: 15px;color: rgb(171, 25, 66);font-family: "Times New Roman";font-variant: normal;text-transform: none;font-weight: bold;background: rgb(255, 255, 255);\">GapCloser\u7684\u4e0b\u8f7d\u4e0e\u5b89\u88c5<\/span><\/span><\/strong><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\"><\/span><\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"bash\"><code><span class=\"code-snippet_outer\">\u5efa\u6587\u4ef6\u5939\u5e76\u8fdb\u5165\uff1amkdir GapCloser && <span class=\"code-snippet__built_in\">cd<\/span> GapCloser<\/span><\/code><code><span class=\"code-snippet_outer\">\u4e0b\u8f7d\u5b89\u88c5\u5305\u5e76\u89e3\u538b\uff1awget https:\/\/anaconda.org\/bioconda\/soapdenovo2-GapCloser\/1.12\/download\/linux-64\/soapdenovo2-GapCloser-1.12-1.tar.bz2<\/span><\/code><code><span class=\"code-snippet_outer\">tar -jxvf soapdenovo2-GapCloser-1.12-1.tar.bz2<\/span><\/code><code><span class=\"code-snippet_outer\">\u8fdb\u5165bin\u76ee\u5f55\uff1a<span class=\"code-snippet__built_in\">cd<\/span> bin\/<\/span><\/code><code><span class=\"code-snippet_outer\">\u67e5\u770b\u662f\u5426\u5b89\u88c5\u6210\u529f\uff1a.\/GapCloser -h<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\"><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012759\" data-ratio=\"0.3491329479768786\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/9_YBolRvJKRxzoCFMI3GfKFKY8qk0amA.png?resize=553%2C188\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian39S5oWwd8SVI7d5SsibfJUNR28YBolRvJKRxzoCFMI3GfKFKY8qk0amA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"865\" height=\"188 .53997802734375\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-align: left;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"\"><strong>2.2. \u51c6\u5907\u8f93\u5165\u6587\u4ef6<\/strong><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);\">GapCloser\u9700\u8981\u4e24\u4e2a\u8f93\u5165\u6587\u4ef6\uff0c\u4e00\u4e2a\u662f\u7ec4\u88c5\u597d\u7684contig\u6587\u4ef6\uff0c\u53e6\u4e00\u4e2a\u662f\u6d4b\u5e8freads\u6587\u4ef6\u3002contig\u6587\u4ef6\u53ef\u4ee5\u662fsoapdenovo2\u6216\u5176\u4ed6\u8f6f\u4ef6\u8f93\u51fa\u7684fasta\u683c\u5f0f\u6587\u4ef6\uff0creads\u6587\u4ef6\u53ef\u4ee5\u662ffastq\u6216fasta\u683c\u5f0f\u6587\u4ef6\uff0c\u652f\u6301\u5355\u7aef\u6216\u53cc\u7aef\u6d4b\u5e8f\u6570\u636e\u3002\u5982\u679c\u6709\u591a\u4e2areads\u6587\u4ef6\uff0c\u53ef\u4ee5\u5c06\u5b83\u4eec\u653e\u5728\u4e00\u4e2a\u76ee\u5f55\u4e0b\uff0c\u5e76\u5728\u914d\u7f6e\u6587\u4ef6\u4e2d\u6307\u5b9a\u3002<\/span> <\/span><o:page><\/o:page><\/section>\n<section style=\"text-align: left;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"\"><strong>2.3 \u7f16\u5199\u914d\u7f6e\u6587\u4ef6<\/strong><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\">\u914d\u7f6e\u6587\u4ef6\u662f\u4e00\u4e2a\u6587\u672c\u6587\u4ef6\uff0c\u7528\u4e8e\u6307\u5b9a\u8f93\u5165\u8f93\u51fa\u6587\u4ef6\u7684\u8def\u5f84\u548c\u540d\u79f0\uff0c\u4ee5\u53ca\u4e00\u4e9b\u5176\u4ed6\u7684\u9009\u9879\u3002\u914d\u7f6e\u6587\u4ef6\u7684\u683c\u5f0f\u5982\u4e0b\uff1a<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\"><\/span><\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"ini\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">max_rd_len<\/span>=<span class=\"code-snippet__number\">150<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__section\">[LIB]<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">avg_ins<\/span>=<span class=\"code-snippet__number\">500<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">reverse_seq<\/span>=<span class=\"code-snippet__number\">0<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">asm_flags<\/span>=<span class=\"code-snippet__number\">3<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">map_len<\/span>=<span class=\"code-snippet__number\">32<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">q<\/span>=\/path\/to\/single\/reads.fq<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">q1<\/span>=\/path\/to\/read1.fq<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">q2<\/span>=\/path\/to\/read2.fq<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\"><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\">\u5176\u4e2d\uff0cmax_rd_len\u662f\u6d4b\u5e8freads\u7684\u6700\u5927\u957f\u5ea6\uff0cavg_ins\u662f\u63d2\u5165\u7247\u6bb5\u7684\u5e73\u5747\u957f\u5ea6\uff0creverse_seq\u662f\u662f\u5426\u9700\u8981\u53cd\u8f6c\u5e8f\u5217\uff0casm_flags\u662f\u6307\u5b9areads\u7528\u4e8e\u54ea\u4e2a\u9636\u6bb5\u7684\u7ec4\u88c5\uff081\u4e3acontig\u9636\u6bb5\uff0c2\u4e3ascaffold\u9636\u6bb5\uff0c3\u4e3a\u4e24\u8005\u90fd\u7528\uff09\uff0cmap_len\u662f\u6307\u5b9areads\u6bd4\u5bf9\u5230contig\u7684\u6700\u5c0f\u957f\u5ea6\uff0cq\u3001q1\u3001q2\u662f\u6307\u5b9a\u5355\u7aef\u6216\u53cc\u7aef\u6d4b\u5e8f\u6570\u636e\u7684\u8def\u5f84\u548c\u540d\u79f0\u3002\u5982\u679c\u6709\u591a\u4e2a\u6d4b\u5e8f\u5e93\uff0c\u53ef\u4ee5\u5728\u914d\u7f6e\u6587\u4ef6\u4e2d\u6dfb\u52a0\u591a\u4e2a[LIB]\u6bb5\u3002<\/span><\/section>\n<section style=\"text-align: left;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"\"><strong>2.4 \u8fd0\u884cGapCloser<\/strong><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\">\u8fd0\u884cGapCloser\u7684\u547d\u4ee4\u5982\u4e0b\uff1a<\/span><\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\"><code><span class=\"code-snippet_outer\">.\/GapCloser -a \/path\/to\/contig.fa -b \/path\/to\/config_file -o \/path\/to\/output_file -t number_of_threads<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);\">\u5176\u4e2d\uff0c-a\u662f\u6307\u5b9acontig\u6587\u4ef6\u7684\u8def\u5f84\u548c\u540d\u79f0\uff0c-b\u662f\u6307\u5b9a\u914d\u7f6e\u6587\u4ef6\u7684\u8def\u5f84\u548c\u540d\u79f0\uff0c-o\u662f\u6307\u5b9a\u8f93\u51fa\u6587\u4ef6\u7684\u8def\u5f84\u548c\u540d\u79f0\uff0c-t\u662f\u6307\u5b9a\u4f7f\u7528\u7684\u7ebf\u7a0b\u6570\u3002\u8fd0\u884c\u5b8c\u6210\u540e\uff0c\u8f93\u51fa\u6587\u4ef6\u4e2d\u4f1a\u5305\u542b\u586b\u8865\u597d\u7684gap\u7684scaffold\u5e8f\u5217\u3002<\/span> <\/span><o:page><\/o:page><\/section>\n<section style=\"text-align: left;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"\"><strong>2.5 \u5206\u6790\u7ed3\u679c<\/strong><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\">\u53ef\u4ee5\u4f7f\u7528\u4e00\u4e9b\u5de5\u5177\u6765\u5206\u6790gap\u586b\u8865\u7684\u7ed3\u679c\uff0c\u6bd4\u5982\u7edf\u8ba1scaffold\u7684\u6570\u91cf\u3001\u957f\u5ea6\u3001N50\u7b49\u6307\u6807\uff0c\u6216\u8005\u6bd4\u5bf9\u5230\u53c2\u8003\u57fa\u56e0\u7ec4\u6765\u8bc4\u4f30\u7ec4\u88c5\u7684\u51c6\u786e\u6027\u548c\u5b8c\u6574\u6027\u3002\u4e5f\u53ef\u4ee5\u4f7f\u7528\u53ef\u89c6\u5316\u5de5\u5177\u6765\u67e5\u770bgap\u586b\u8865\u524d\u540e\u7684scaffold\u7ed3\u6784\u548c\u53d8\u5316\u3002<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\">\u603b\u4e4b\uff0cKmerGenie\u548cGapCloser\u662f\u5e2e\u52a9\u6211\u4eec\u63d0\u9ad8\u7ec4\u88c5\u8d28\u91cf\u597d\u5e2e\u624b\uff0c\u9897\u4f60\u4e5f\u5bf9\u57fa\u56e0\u7ec4\u7ec4\u88c5\u611f\u5174\u8da3\uff0c\u90a3\u5c31\u81ea\u5df1\u52a8\u624b\u8bd5\u8bd5\u5427\uff01<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"><\/span><\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"go\"><code><span class=\"code-snippet_outer\">gcc\uff1ahttps:<span class=\"code-snippet__comment\">\/\/gcc.gnu.org\/install\/download.html<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__built_in\">make<\/span>\uff1ahttps:<span class=\"code-snippet__comment\">\/\/www.gnu.org\/software\/make\/<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">zlib\uff1ahttps:<span class=\"code-snippet__comment\">\/\/www.zlib.net\/<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">kmergenie\uff1ahttp:<span class=\"code-snippet__comment\">\/\/kmergenie.bx.psu.edu\/<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">gapclode\uff1aFiles :: Anaconda.org<\/span><\/code><\/pre>\n<\/section>\n<section powered-by=\"xiumi.us\" style=\"margin-bottom: 0px;\">\n<section>\n<section powered-by=\"xiumi.us\">\n<section>\n<section powered-by=\"xiumi.us\">\n<section>\n<section powered-by=\"xiumi.us\">\n<section>\n<section>\n<p style=\"text-align: center;\"><a target=\"_blank\" href=\"http:\/\/mp.weixin.qq.com\/s?__biz=Mzg3OTg3MjQyNg==&mid=2247496554&idx=2&sn=e9bce5306709facbe58419cfd0a970e5&chksm=cf7f63aff808eab9333eb868d90020ad6a4e42481c690f1cf8234006a7e479b4bfe6bde6e537&scene=21#wechat_redirect\" textvalue=\"\u4f60\u5df2\u9009\u4e2d\u4e86\u6dfb\u52a0\u94fe\u63a5\u7684\u5185\u5bb9\" linktype=\"text\" imgurl=\"\" imgdata=\"null\" data-itemshowtype=\"0\" tab=\"innerlink\" data-linktype=\"1\" rel=\"noopener\"><span class=\"js_jump_icon h5_image_link\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-imgfileid=\"100013619\" data-ratio=\"0.35444444444444445\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/10_8icYhvgK1PSjsCmzwkrjUW4ibe58Ag.jpg?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_jpg\/zcicibWZessAw37y5lPcYRhYtNwozr1uSUBcUp88yxRGKwY8pycOQlGKLuLR8icYhvgK1PSjsCmzwkrjUW4ibe58Ag\/640?wx_fmt=jpeg&from=appmsg'\" data-type=\"jpeg\" data-w=\"900\" style=\"\" data-recalc-dims=\"1\" \/><\/span><\/a><span style=\"font-size: var(--articleFontsize);letter-spacing: 0.034em;\"><\/span><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<p style=\"margin-top: 0pt;margin-bottom: 0pt;margin-left: 0pt;letter-spacing: 0.578px;text-indent: 0pt;text-wrap: wrap;text-align: justify;line-height: normal;font-size: 12pt;font-family: helvetica;color: rgb(0, 0, 0);break-after: auto;\"><span style=\"font-family: \u5b8b\u4f53;font-size: 12pt;text-indent: 0pt;color: rgba(0, 0, 0, 0.9);letter-spacing: 0.034em;\"><\/span><span style=\"font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;font-size: 15px;color: rgba(0, 0, 0, 0.9);letter-spacing: 0.034em;text-align: justify;\"><\/span><span style=\"font-size: var(--articleFontsize);letter-spacing: 0.034em;color: rgba(0, 0, 0, 0.9);font-family: mp-quote, -apple-system-font, BlinkMacSystemFont, "Helvetica Neue", "PingFang SC", "Hiragino Sans GB", "Microsoft YaHei UI", "Microsoft YaHei", Arial, sans-serif;text-align: justify;\"><\/span><span style=\"font-size: 15px;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012766\" data-ratio=\"0.38981481481481484\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/11_FbEg9fibwQicL8l2ExKOZZTmAHXabQ-4.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAx3HetBkB7aOGibFWKqibqIATyC4zFibzCgdrxFwRep6cDMLIbA0FbEg9fibwQicL8l2ExKOZZTmAHXabQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"font-size: var(--articleFontsize);letter-spacing: 0.034em;caret-color: rgba(0, 0, 0, 0);\" data-recalc-dims=\"1\" \/><\/span><\/p>\n<section powered-by=\"xiumi.us\" style=\"margin-bottom: 0px;letter-spacing: 0.578px;text-wrap: wrap;outline: 0px;font-family: system-ui, -apple-system, BlinkMacSystemFont, "Helvetica Neue", "PingFang SC", "Hiragino Sans GB", "Microsoft YaHei UI", "Microsoft YaHei", Arial, sans-serif;background-color: rgb(255, 255, 255);text-align: left;\">\n<section style=\"outline: 0px;font-size: 16px;\">\n<section powered-by=\"xiumi.us\" style=\"margin: 10px;outline: 0px;justify-content: flex-start;display: flex;flex-flow: row;\">\n<section style=\"padding-right: 10px;padding-left: 10px;outline: 0px;display: inline-block;width: 558px;vertical-align: top;border-style: dashed;border-width: 1px;border-color: rgb(62, 62, 62);align-self: flex-start;flex: 0 0 auto;\">\n<section powered-by=\"xiumi.us\" style=\"margin-top: 10px;margin-bottom: 10px;outline: 0px;\">\n<section style=\"outline: 0px;display: inline-block;width: 536px;border-width: 0px 0px 0px 10px;border-style: solid;border-left-color: rgb(144, 215, 236);border-right-color: rgb(46, 172, 109);box-shadow: rgb(0, 0, 0) 0px 0px 0px;border-bottom-left-radius: 0px;\">\n<section powered-by=\"xiumi.us\" style=\"padding-right: 3px;padding-left: 3px;outline: 0px;\">\n<section style=\"margin-top: 0.95em;margin-bottom: -0.65em;outline: 0px;display: inline-block;width: 520px;vertical-align: top;\">\n<section style=\"margin-top: -1em;padding: 3px 10px;outline: 0px;display: inline-block;vertical-align: top;color: rgb(0, 154, 68);\">\n<p style=\"outline: 0px;\"><strong style=\"outline: 0px;\">\u5f80\u671f\u63a8\u8350<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section powered-by=\"xiumi.us\" style=\"outline: 0px;text-align: justify;\">\n<section style=\"outline: 0px;letter-spacing: 0.578px;line-height: 1.75em;\"><a target=\"_blank\" href=\"http:\/\/mp.weixin.qq.com\/s?__biz=Mzg3OTg3MjQyNg==&mid=2247491794&idx=1&sn=2b7a4de95169c79202e44813885a8250&chksm=cf7f7017f808f9015689839fe4057fd418bf7b20eb1dfb5a28cd92e56a41b5605e62bfbc16fb&scene=21#wechat_redirect\" textvalue=\"1.\u642d\u5efa\u751f\u4fe1\u5206\u6790\u6d41\u6c34\u7ebf\uff0c\u5982\u5de5\u5382\u4e00\u683724\u5c0f\u65f6\u8fd0\u8f6cSnakemake\u2014\u2014\u8fdb\u9636\u547d\u4ee4\" linktype=\"text\" imgurl=\"\" imgdata=\"null\" data-itemshowtype=\"0\" tab=\"innerlink\" data-linktype=\"2\" hasload=\"1\" style=\"color: var(--weui-LINK);outline: 0px;cursor: pointer;font-size: 14px;\" rel=\"noopener\">1.\u642d\u5efa\u751f\u4fe1\u5206\u6790\u6d41\u6c34\u7ebf\uff0c\u5982\u5de5\u5382\u4e00\u683724\u5c0f\u65f6\u8fd0\u8f6cSnakemake\u2014\u2014\u8fdb\u9636\u547d\u4ee4<\/a><br style=\"outline: 0px;\" \/><\/section>\n<section style=\"outline: 0px;letter-spacing: 0.578px;line-height: 1.75em;\"><a target=\"_blank\" href=\"http:\/\/mp.weixin.qq.com\/s?__biz=Mzg3OTg3MjQyNg==&mid=2247491705&idx=1&sn=9ff9b6da28b3a256a99c6697d589be66&chksm=cf7f70bcf808f9aafd1019a0bba3dd3a55e2867dbb9a09203f13c2683adf867094637c405ed1&scene=21#wechat_redirect\" textvalue=\"2.\u6bd4blast\u8fd8\u4f18\u79c0\u7684\u5e8f\u5217\u6bd4\u5bf9\u5de5\u5177\uff1fHMMER\u6765\u4e86\" linktype=\"text\" imgurl=\"\" imgdata=\"null\" data-itemshowtype=\"0\" tab=\"innerlink\" data-linktype=\"2\" hasload=\"1\" style=\"color: var(--weui-LINK);outline: 0px;cursor: pointer;font-size: 14px;\" rel=\"noopener\">2.\u6bd4blast\u8fd8\u4f18\u79c0\u7684\u5e8f\u5217\u6bd4\u5bf9\u5de5\u5177\uff1fHMMER\u6765\u4e86<\/a><\/section>\n<section style=\"outline: 0px;letter-spacing: 0.578px;line-height: 1.75em;\"><a target=\"_blank\" href=\"http:\/\/mp.weixin.qq.com\/s?__biz=Mzg3OTg3MjQyNg==&mid=2247491909&idx=1&sn=902e34bcf53e605fba2b457ec6a33e36&chksm=cf7f7180f808f8961542f458a49da14e85d8831449fb65fbf2623d55affc564686a5422f56fd&scene=21#wechat_redirect\" textvalue=\"3.\u5bf9\u5355\u7ec6\u80de\u5206\u6790\u6beb\u65e0\u5934\u7eea\uff1f\u8ba9popsicleR\u9886\u4f60\u5165\u95e8\" linktype=\"text\" imgurl=\"\" imgdata=\"null\" data-itemshowtype=\"0\" tab=\"innerlink\" data-linktype=\"2\" hasload=\"1\" style=\"color: var(--weui-LINK);outline: 0px;cursor: pointer;font-size: 14px;\" rel=\"noopener\">3.\u5bf9\u5355\u7ec6\u80de\u5206\u6790\u6beb\u65e0\u5934\u7eea\uff1f\u8ba9popsicleR\u9886\u4f60\u5165\u95e8<\/a><\/section>\n<section style=\"outline: 0px;letter-spacing: 0.578px;line-height: 1.75em;\"><a target=\"_blank\" href=\"http:\/\/mp.weixin.qq.com\/s?__biz=Mzg3OTg3MjQyNg==&mid=2247491905&idx=1&sn=fb34ebd6282962c7803badaee7a39096&chksm=cf7f7184f808f8929608c0050344ad86193d0fc6455c1c18e16cc17bf4b37832b63d3b18284e&scene=21#wechat_redirect\" textvalue=\"4.\u5c0f\u679c\u5e26\u4f60\u7ed8\u5236ROC\u66f2\u7ebf\u8bc4\u4f30\u751f\u5b58\u9884\u6d4b\u80fd\u529b\" linktype=\"text\" imgurl=\"\" imgdata=\"null\" data-itemshowtype=\"0\" tab=\"innerlink\" data-linktype=\"2\" hasload=\"1\" style=\"color: var(--weui-LINK);outline: 0px;cursor: pointer;\" rel=\"noopener\"><span style=\"outline: 0px;font-size: 14px;\">4.\u5c0f\u679c\u5e26\u4f60\u7ed8\u5236ROC\u66f2\u7ebf\u8bc4\u4f30\u751f\u5b58\u9884\u6d4b\u80fd\u529b<\/span><\/a><\/section>\n<section style=\"outline: 0px;letter-spacing: 0.578px;line-height: 1.75em;\"><a target=\"_blank\" href=\"http:\/\/mp.weixin.qq.com\/s?__biz=Mzg3OTg3MjQyNg==&mid=2247493633&idx=1&sn=2263dfe7572c0bcf6816c2c1a37d79de&chksm=cf7f78c4f808f1d2209321d6ace39fde5fa60c0691b56f88eac21916f5a2872ce8ee345f1d5f&scene=21#wechat_redirect\" textvalue=\"\u8f6f\u4ef6\u5305\u5b89\u88c5\u3001\u6253\u602a\u5feb\u53c8\u597d\uff0c1024G\u5b58\u50a8\u7684\u751f\u4fe1\u670d\u52a1\u5668\uff1b\u8fd8\u6709\u6bd4\u8fd9\u66f4\u7701\u94b1\u7684\u561b\uff01\uff01\uff01\" linktype=\"text\" imgurl=\"\" imgdata=\"null\" data-itemshowtype=\"0\" tab=\"innerlink\" data-linktype=\"2\" hasload=\"1\" style=\"color: var(--weui-LINK);outline: 0px;cursor: pointer;letter-spacing: 0.578px;font-size: 14px;\" rel=\"noopener\">5.\u8f6f\u4ef6\u5305\u5b89\u88c5\u3001\u6253\u602a\u5feb\u53c8\u597d\uff0c1024G\u5b58\u50a8\u7684\u751f\u4fe1\u670d\u52a1\u5668\uff1b\u8fd8\u6709\u6bd4\u8fd9\u66f4\u7701\u94b1\u7684\u561b\uff01\uff01\uff01<\/a><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<p style=\"display: none;\"><mp-style-type data-value=\"3\"><\/mp-style-type><\/p>\n<p><\/content>\n<\/div>\n<p><\/body><br \/>\n<\/html><\/p>\n","protected":false},"excerpt":{"rendered":"<p>Kmergenie + GapCloser\u8ba9\u4f60\u7684\u57fa\u56e0\u7ec4\u7ec4\u88c5\u4e8b\u534a\u529f\u500d \u539f\u521b \u5c0f\u679c&nbsp 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{"id":55863,"date":"2024-06-16T17:17:11","date_gmt":"2024-06-16T09:17:11","guid":{"rendered":"http:\/\/www.biocloudservice.com\/wordpress\/?p=55863"},"modified":"2024-06-16T17:17:11","modified_gmt":"2024-06-16T09:17:11","slug":"kmergenie-gapcloser%e8%ae%a9%e4%bd%a0%e7%9a%84%e5%9f%ba%e5%9b%a0%e7%bb%84%e7%bb%84%e8%a3%85%e4%ba%8b%e5%8d%8a%e5%8a%9f%e5%80%8d","status":"publish","type":"post","link":"http:\/\/www.biocloudservice.com\/wordpress\/?p=55863","title":{"rendered":"Kmergenie + GapCloser\u8ba9\u4f60\u7684\u57fa\u56e0\u7ec4\u7ec4\u88c5\u4e8b\u534a\u529f\u500d"},"content":{"rendered":"

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170);\"><span style=\"font-size: 15px;font-family: "Times New Roman";font-variant: normal;text-transform: none;\">1<\/span><span style=\"font-size: 15px;font-family: \u5b8b\u4f53;font-variant: normal;text-transform: none;\">.<\/span><span style=\"font-size: 15px;font-family: "Times New Roman";font-variant: normal;text-transform: none;\"> kmergenie<\/span><br \/>\n <\/span><\/strong><span style=\"font-size: 15px;\"><\/span><\/h2>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><strong><span style=\"color: rgb(171, 25, 66);\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\">1.1 <\/span><span style=\"font-size: 15px;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;\">kmergenie\u662f\u4ec0\u4e48\uff1f<\/span><\/span><\/strong><span style=\"font-size: 15px;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;\"><\/span><\/p>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\">kmergenie\u662f\u4e00\u4e2a\u5f00\u6e90\u7684\u8f6f\u4ef6\u5de5\u5177\uff0c\u7528\u4e8e\u4f30\u8ba1\u6700\u4f73k-mer\u7684\u5927\u5c0f\uff0c\u5b83\u6709\u52a9\u4e8e\u540e\u7eed\u7684\u57fa\u56e0\u7ec4\u7ec4\u88c5\u3002k-mer\u662f\u6307\u957f\u5ea6\u4e3ak\u7684DNA\u5e8f\u5217\uff0c\u5b83\u53ef\u4ee5\u4ece\u6d4b\u5e8f\u6570\u636e\u4e2d\u63d0\u53d6\u51fa\u6765\u3002\u4e0d\u540c\u7684k-mer\u5927\u5c0f\u4f1a\u5f71\u54cd\u7ec4\u88c5\u7684\u8d28\u91cf\u548c\u6548\u7387\uff0c\u56e0\u6b64\u9009\u62e9\u4e00\u4e2a\u5408\u9002\u7684k-mer\u5927\u5c0f\u662f\u5f88\u91cd\u8981\u7684\u3002kmergenie\u53ef\u4ee5\u6839\u636e\u6d4b\u5e8f\u6570\u636e\u7684\u7279\u5f81\uff0c\u81ea\u52a8\u8ba1\u7b97\u51fa\u4e00\u4e2a\u6700\u4f73\u7684k-mer\u5927\u5c0f\uff0c\u4ece\u800c\u63d0\u9ad8\u7ec4\u88c5\u7684\u51c6\u786e\u6027\u548c\u901f\u5ea6\u3002<\/span><\/p>\n<p style=\"text-align: left;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"color: rgb(171, 25, 66);font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\"><strong>1.2 \u5982\u4f55\u4e0b\u8f7d\u4e0e\u5b89\u88c5kmergenie\uff1f<\/strong><\/span><\/p>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\">kmergenie\u53ef\u4ee5\u5728Linux\u548cMac OS X\u7cfb\u7edf\u4e0a\u8fd0\u884c\uff0c\u5b83\u9700\u8981\u4e00\u4e9b\u4f9d\u8d56\u8f6f\u4ef6\uff0c\u5982gcc\uff0cmake\uff0cpython\u548czlib\u3002<\/span><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"properties\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">wget<\/span> <span class=\"code-snippet__string\">http:\/\/kmergenie.bx.psu.edu\/kmergenie-1.7051.tar.gz<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">tar<\/span> <span class=\"code-snippet__string\">-xzvf kmergenie-1.7051.tar.gz <\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">cd<\/span> <span class=\"code-snippet__string\">kmergenie-1.7051<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">python<\/span> <span class=\"code-snippet__string\">setup.py install<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u6dfb\u52a0\u53ef\u6267\u884c\u6743\u9650<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">chmod<\/span> <span class=\"code-snippet__string\">-R 755 *<\/span><\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012756\" data-ratio=\"0.4638888888888889\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_wCtgnNKSB0S3F1gtFAEPjBibcmJsWw.png?resize=553%2C256\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian3r3y8cnsLk77Q02vmGVuEV8ouBwCtgnNKSB0S3F1gtFAEPjBibcmJsWw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" height=\"256 .7999572753906\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><\/span><\/p>\n<p style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\">\u8fd9\u6837\u5c31\u5b8c\u6210\u4e86kmergenie\u7684\u5b89\u88c5\uff0c\u53ef\u4ee5\u4f7f\u7528\u4ee5\u4e0b\u547d\u4ee4\u6765\u6d4b\u8bd5\u662f\u5426\u6210\u529f\uff1a<\/span><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"nginx\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attribute\">kmergenie<\/span> --version<\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-top: 5pt;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);\">\u5982\u679c\u4f60\u770b\u5230\u4e86kmergenie\u7684\u7248\u672c\u53f7\uff0c\u90a3\u4e48\u606d\u559c\u4f60\uff0c\u4f60\u5df2\u7ecf\u6210\u529f\u5b89\u88c5\u4e86kmergenie\uff01 <br \/><\/span><\/span><span style=\"color: rgb(171, 25, 66);font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\"><strong>1.3 \u5982\u4f55\u8fd0\u884ckmergenie\uff1f<\/strong><\/span><\/p>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"line-height: 150%;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);\">\u8981\u8fd0\u884ckmergenie\uff0c\u4f60\u9700\u8981\u51c6\u5907\u4e00\u4e9b\u8f93\u5165\u6587\u4ef6\uff0c\u5305\u62ec\u6d4b\u5e8f\u6570\u636e\u548c\u914d\u7f6e\u6587\u4ef6\u3002\u6d4b\u5e8f\u6570\u636e\u53ef\u4ee5\u662fFASTA\u6216FASTQ\u683c\u5f0f\u7684\u6587\u4ef6\uff0c\u4e5f\u53ef\u4ee5\u662f\u538b\u7f29\u8fc7\u7684.gz\u6216.bz2\u683c\u5f0f\u7684\u6587\u4ef6\u3002\u914d\u7f6e\u6587\u4ef6\u662f\u4e00\u4e2a\u6587\u672c\u6587\u4ef6\uff0c\u5176\u4e2d\u6bcf\u4e00\u884c\u5305\u542b\u4e00\u4e2a\u6d4b\u5e8f\u6570\u636e\u6587\u4ef6\u7684\u8def\u5f84\u548c\u76f8\u5e94\u7684\u6743\u91cd\u3002\u6743\u91cd\u662f\u4e00\u4e2a\u4ecb\u4e8e0\u548c1\u4e4b\u95f4\u7684\u6570\u503c\uff0c\u8868\u793a\u8be5\u6587\u4ef6\u5728\u603b\u6d4b\u5e8f\u6570\u636e\u4e2d\u6240\u5360\u7684\u6bd4\u4f8b\u3002\u4f8b\u5982\uff0c\u5982\u679c\u4f60\u6709\u4e24\u4e2a\u6d4b\u5e8f\u6570\u636e\u6587\u4ef6\uff0c\u4e00\u4e2a\u662f100M\uff0c\u53e6\u4e00\u4e2a\u662f150M\uff0c\u90a3\u4e48\u4f60\u53ef\u4ee5\u7ed9\u7b2c\u4e00\u4e2a\u6587\u4ef6\u5206\u914d0.4\u7684\u6743\u91cd\uff0c\u7ed9\u7b2c\u4e8c\u4e2a\u6587\u4ef6\u5206\u914d0.6\u7684\u6743\u91cd\u3002\u914d\u7f6e\u6587\u4ef6\u7684\u793a\u4f8b\u5982\u4e0b\uff1a<\/span> <\/span><\/p>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-imgfileid=\"100012767\" data-ratio=\"0.38981481481481484\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_IWicymEetCc6Enf2BkUE4Yz1Ya5e5w-7.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyuYsqlJnQUJvnS2iciaDibtfbdV0VmHlriaSjYwjFPLp1BLjokHIWicymEetCc6Enf2BkUE4Yz1Ya5e5w\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;font-size: 15px;text-wrap: wrap;letter-spacing: 0.578px;text-align: center;\" data-recalc-dims=\"1\" \/><\/span><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\"><code><span class=\"code-snippet_outer\">\/home\/user\/seq1.fastq 0.4 <\/span><\/code><code><span class=\"code-snippet_outer\">\/home\/user\/seq2.fastq.gz 0.6<\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"line-height: 150%;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\">\u5f53\u4f60\u51c6\u5907\u597d\u8f93\u5165\u6587\u4ef6\u540e\uff0c\u5c31\u53ef\u4ee5\u4f7f\u7528\u4ee5\u4e0b\u547d\u4ee4\u6765\u8fd0\u884ckmergenie\uff1a<\/span><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"css\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__selector-tag\">kmergenie<\/span> <span class=\"code-snippet__selector-tag\">config<\/span><span class=\"code-snippet__selector-class\">.txt<\/span> <span class=\"code-snippet__selector-tag\">-o<\/span> <span class=\"code-snippet__selector-tag\">output<\/span><\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"line-height: 150%;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\">\u5176\u4e2dconfig.txt\u662f\u914d\u7f6e\u6587\u4ef6\u7684\u8def\u5f84\uff0c-o output\u662f\u6307\u5b9a\u8f93\u51fa\u76ee\u5f55\u7684\u9009\u9879\u3002\u4e5f\u53ef\u4ee5\u4f7f\u7528\u5176\u4ed6\u4e00\u4e9b\u9009\u9879\u6765\u8c03\u6574kmergenie\u7684\u53c2\u6570\uff0c\u5982-k\u6307\u5b9a\u6700\u5c0f\u548c\u6700\u5927\u7684k-mer\u5927\u5c0f\uff0c-l\u6307\u5b9a\u8f93\u51fa\u7ed3\u679c\u7684\u683c\u5f0f\u7b49\u3002\u4f60\u53ef\u4ee5\u4f7f\u7528\u4ee5\u4e0b\u547d\u4ee4\u6765\u67e5\u770b\u6240\u6709\u53ef\u7528\u7684\u9009\u9879\uff1a<\/span><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"bash\"><code><span class=\"code-snippet_outer\">kmergenie --<span class=\"code-snippet__built_in\">help<\/span><\/span><\/code><\/pre>\n<\/section>\n<p style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"line-height: 150%;font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012755\" data-ratio=\"0.2908912830558276\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_gDTHQdaJon3e8IyP4eCxhUFG7mgfvA.png?resize=553%2C161\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian35f4qKjgZxiaj2PjMFsTeXSf0dgDTHQdaJon3e8IyP4eCxhUFG7mgfvA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1021\" height=\"161 .06997680664062\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><span style=\"text-indent: 0em;letter-spacing: 0.034em;\"><\/span><\/span><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"diff\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">--diploid\uff1a\u4f7f\u7528\u4e8c\u500d\u4f53\u6a21\u578b\uff08\u9ed8\u8ba4\u503c\uff1a\u5355\u500d\u4f53\u6a21\u578b\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">--one-pass\uff1a\u8df3\u8fc7\u7b2c\u4e8c\u6b21\u4f20\u9012\u4ee5\u4f30\u8ba12 bp\u5206\u8fa8\u7387\u4e0b\u7684k\uff08\u9ed8\u8ba4\u503c\uff1a\u4e24\u6b21\u4f20\u9012\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">-k\uff1a\u8981\u8003\u8651\u7684\u6700\u5927k-mer\u5927\u5c0f\uff08\u9ed8\u8ba4\u503c\uff1a121\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">-l\uff1a\u8981\u8003\u8651\u7684\u6700\u5c0fk-mer\u5927\u5c0f\uff08\u9ed8\u8ba4\u503c\uff1a15\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">-s\uff1a\u8fde\u7eedkmer\u5927\u5c0f\u4e4b\u95f4\u7684\u95f4\u9694\uff08\u9ed8\u8ba4\u503c\uff1a10\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">-e\uff1ak-mer\u91c7\u6837\u503c\uff08\u9ed8\u8ba4\u503c\uff1a\u81ea\u52a8\u68c0\u6d4b\u4ee5\u4f7f\u7528\u7ea6200 MB\u5185\u5b58\/\u7ebf\u7a0b\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">-t\uff1a\u7ebf\u7a0b\u6570\uff08\u9ed8\u8ba4\u503c\uff1a\u6838\u5fc3\u6570\u51cf\u4e00\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">-o\uff1a\u8f93\u51fa\u6587\u4ef6\u7684\u524d\u7f00\uff08\u9ed8\u8ba4\u503c\uff1a\u76f4\u65b9\u56fe\uff09<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">--debug\uff1aR\u811a\u672c\u7684\u5f00\u53d1\u4eba\u5458\u8f93\u51fa<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__deletion\">--orig-hist\uff1a\u65e7\u7248\u76f4\u65b9\u56fe\u4f30\u8ba1\u65b9\u6cd5\uff08\u901f\u5ea6\u8f83\u6162\uff0c\u51c6\u786e\u6027\u8f83\u4f4e\uff09\u3002<\/span><\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><span style=\"color: rgb(171, 25, 66);font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\"><strong>1.4 \u5982\u4f55\u89e3\u8bfbkmergenie\u7ed3\u679c\u6587\u4ef6\uff1f <\/strong><\/span><span style=\"font-size: 15px;\"> <\/span><o:page><\/o:page><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-top: 5pt;margin-bottom: 5pt;line-height: 150%;text-indent: 0em;\"><span style=\"line-height: 150%;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\">\u5f53\u8fd0\u884c\u5b8ckmergenie\u540e\uff0c\u4f1a\u5728\u8f93\u51fa\u76ee\u5f55\u4e2d\u770b\u5230\u4e00\u4e9b\u7ed3\u679c\u6587\u4ef6\uff0c\u5982histograms.pdf, report.html, best_k.txt\u7b49\u3002<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-top: 5pt;margin-bottom: 5pt;line-height: 150%;text-indent: 0em;\"><span style=\"line-height: 150%;font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012754\" data-ratio=\"0.08055555555555556\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_Zx6212zFQrVAicadtCSM1g2Sv4CuWA.png?resize=548%2C44\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian3hViauSXX3hRB5tow2Wib9CIS8G9Zx6212zFQrVAicadtCSM1g2Sv4CuWA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" height=\"44 .27000427246094\" width=\"548 .010009765625\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-top: 5pt;margin-bottom: 5pt;line-height: 150%;text-indent: 0em;\"><span style=\"line-height: 150%;font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\">histograms.pdf\u662f\u4e00\u4e2a\u56fe\u5f62\u6587\u4ef6\uff0c\u663e\u793a\u4e86\u4e0d\u540ck-mer\u5927\u5c0f\u4e0b\u7684\u9891\u7387\u5206\u5e03\u60c5\u51b5\u3002report.html\u662f\u4e00\u4e2a\u7f51\u9875\u6587\u4ef6\uff0c\u5c55\u793a\u4e86\u4e0d\u540ck-mer\u5927\u5c0f\u4e0b\u7684\u7ec4\u88c5\u7edf\u8ba1\u4fe1\u606f\uff0c\u5982N50, L50, \u5e73\u5747\u957f\u5ea6\u7b49\u3002best_k.txt\u662f\u4e00\u4e2a\u6587\u672c\u6587\u4ef6\uff0c\u5305\u542b\u4e86kmergenie\u63a8\u8350\u7684\u6700\u4f73k-mer\u5927\u5c0f\u3002<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012757\" data-ratio=\"0.6657407407407407\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_nVyk0zB6n6nkYl8LcyBh0h13hhicHw.png?resize=553%2C368\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian3yEEoico6t7TkIo4RYg8cm1aSEicnVyk0zB6n6nkYl8LcyBh0h13hhicHw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" height=\"368 .739990234375\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-top: 5pt;margin-bottom: 5pt;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"line-height: 150%;font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);\">kmergenie\u4f30\u8ba1\u4e86\u57fa\u56e0\u7ec4\u7684\u5927\u5c0f<\/span><span style=\"line-height: 150%;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(17, 17, 17);\">\u4e3a38120637 bp\u3002<\/span><span style=\"line-height: 150%;font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);\">kmergenie\u63a8\u8350\u4e86\u6700\u4f73\u7684k-mer\u5927\u5c0f\u4e3a61\uff0c\u8fd9\u4e2a\u503c\u662f\u6839\u636eN50\u548c\u603b\u957f\u5ea6\u4e24\u4e2a\u6307\u6807\u7efc\u5408\u8003\u8651\u7684\u3002N50\u662f\u6307\u80fd\u8986\u76d6\u4e00\u534a\u57fa\u56e0\u7ec4\u957f\u5ea6\u7684\u6700\u77ed\u7247\u6bb5\u7684\u5e73\u5747\u957f\u5ea6\uff0c\u8d8a\u5927\u8d8a\u597d\u3002\u603b\u957f\u5ea6\u662f\u6307\u6240\u6709\u7247\u6bb5\u7684\u957f\u5ea6\u4e4b\u548c\uff0c\u8d8a\u63a5\u8fd1\u57fa\u56e0\u7ec4\u5927\u5c0f\u8d8a\u597d\u3002<\/span> <\/span><o:page><\/o:page><\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012761\" data-ratio=\"0.44722222222222224\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_OATPtcN6IajUicQxN0DlB9icqftfBw.png?resize=553%2C228\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian3T4kzS1OpI4juzTEj8of0QBymmCOATPtcN6IajUicQxN0DlB9icqftfBw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" height=\"228 .00001525878906\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012760\" data-ratio=\"0.2712962962962963\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/8_YicV9goEVvUKUAPicV3Cj0ycszagow.png?resize=553%2C150\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian3OECBMMZAyQBhHQatAsia1kiaF9CmYicV9goEVvUKUAPicV3Cj0ycszagow\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" height=\"150 .39999389648438\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"line-height: 150%;font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(17, 17, 17);\">\u4e0a\u56fe\u662f\u4e00\u4e2a\u5173\u4e8ek\u503c\u7684\u6837\u672c\u76f4\u65b9\u56fe\u548c\u62df\u5408\u7684\u56fe\u3002\u6bcf\u4e2a\u56fe\u90fd\u6709\u4e00\u4e2a\u76f4\u65b9\u56fe\u548c\u4e00\u6761\u6298\u7ebf\u56fe\u3002\u7ea2\u7ebf\u662f\u76f4\u65b9\u56fe\u7684\u5b8c\u6574\u7edf\u8ba1\u6a21\u578b\u62df\u5408\uff0c\u84dd\u7ebf\u662f\u5f02\u8d28k-mer\u62df\u5408\uff0c\u7eff\u7ebf\u662f\u540c\u8d28k-mer\u62df\u5408\u3002\u56fe\u7684x\u8f74\u8868\u793a\u4e30\u5ea6\uff0cy\u8f74\u8868\u793ak-mer\u6570\u91cf\u3002<\/span><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);\">KmerGenie\u7684\u7ed3\u679c\u4e3b\u8981\u4f9d\u8d56\u4e8e\u76f4\u65b9\u56fe\u7684\u5f62\u72b6\u548c\u5cf0\u503c\uff0c\u76f4\u65b9\u56fe\u53cd\u6620\u4e86\u4e0d\u540ck-mer\u5927\u5c0f\u4e0b\uff0c\u51fa\u73b0\u9891\u7387\u4e3ax\u7684k-mer\u6709\u591a\u5c11\u4e2a\u3002\u7406\u60f3\u60c5\u51b5\u4e0b\uff0c\u76f4\u65b9\u56fe\u5e94\u8be5\u5448\u73b0\u4e00\u4e2a\u5355\u5cf0\u5206\u5e03\uff0c\u5cf0\u503c\u5bf9\u5e94\u4e8e\u771f\u5b9e\u7684k-mer\u6570\u91cf\uff0c\u5cf0\u503c\u8d8a\u9ad8\u8d8a\u5c16\u9510\uff0c\u8868\u793a\u6570\u636e\u8d28\u91cf\u8d8a\u597d\uff0c\u566a\u97f3\u8d8a\u5c11\u3002\u5982\u679c\u76f4\u65b9\u56fe\u5448\u73b0\u591a\u5cf0\u5206\u5e03\uff0c\u53ef\u80fd\u662f\u7531\u4e8e\u6d4b\u5e8f\u9519\u8bef\u3001\u91cd\u590d\u5e8f\u5217\u3001\u6742\u5408\u57fa\u56e0\u7ec4\u7b49\u56e0\u7d20\u5bfc\u81f4\u7684\u3002KmerGenie\u4f1a\u6839\u636e\u76f4\u65b9\u56fe\u7684\u5f62\u72b6\u548c\u5cf0\u503c\uff0c\u9009\u62e9\u4e00\u4e2a\u6700\u4f73\u7684k-mer\u5927\u5c0f\uff0c\u8fd9\u4e2a\u5927\u5c0f\u901a\u5e38\u662f\u5728\u5cf0\u503c\u9644\u8fd1\uff0c\u5e76\u4e14\u80fd\u591f\u6700\u5927\u5316\u7ec4\u88c5\u8fde\u901a\u5ea6\u3002\u7ec4\u88c5\u8fde\u901a\u5ea6\u662f\u6307\u7528\u8be5k-mer\u5927\u5c0f\u8fdb\u884c\u7ec4\u88c5\u540e\uff0c\u5f97\u5230\u7684\u6700\u957f\u8fde\u7eed\u5e8f\u5217\uff08contig\uff09\u7684\u957f\u5ea6\u3002KmerGenie\u8fd8\u4f1a\u6839\u636e\u5cf0\u503c\u548c\u6d4b\u5e8f\u6df1\u5ea6\uff0c\u4f30\u8ba1\u57fa\u56e0\u7ec4\u7684\u5927\u5c0f\uff0c\u8fd9\u4e2a\u5927\u5c0f\u662f\u4e0d\u8003\u8651\u91cd\u590d\u5e8f\u5217\u548c\u95f4\u9699\uff08gap\uff09\u7684\u7406\u8bba\u5927\u5c0f\u3002<\/span> <\/span><o:page><\/o:page><\/section>\n<h2 style=\"text-indent: 0em;\"><strong><span style=\"font-size: 15px;color: rgb(0, 122, 170);\"><span style=\"font-size: 15px;font-family: \u5b8b\u4f53;font-variant: normal;text-transform: none;\">2.<\/span><span style=\"font-size: 15px;font-family: "Times New Roman";font-variant: normal;text-transform: none;\"> GapCloser<\/span><br \/>\n <\/span><\/strong><span style=\"font-size: 15px;\"><\/span><\/h2>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: "Times New Roman";font-variant: normal;text-transform: none;font-size: 15px;\">GapCloser\u662f\u4e00\u4e2a\u7528\u4e8e\u586b\u8865\u57fa\u56e0\u7ec4\u5e8f\u5217\u4e2dN\u78b1\u57fa\u7a7a\u7f3a\u7684\u5de5\u5177\u3002\u5b83\u53ef\u4ee5\u4f7f\u7528ONT reads\u3001HiFi reads\u6216\u8005\u662f\u521d\u6b65\u7ec4\u88c5\u7684contigs\u8fdb\u884c\u57fa\u56e0\u7ec4\u7684gap filling\u3002\u6b64\u5916\uff0c\u8be5\u5de5\u5177\u53ef\u8c03\u7528racon\u4ee5\u53capilon\u5904\u7406\u539f\u59cbreads\uff0c\u56e0\u6b64\u4e5f\u53ef\u4ee5\u8f93\u5165\u4e09\u4ee3\u7684raw reads1\u3002\u9700\u8981\u6ce8\u610f\u7684\u662f\uff0c\u6240\u6709\u7684TGS reads\u8f93\u5165\u6587\u4ef6\uff0c\u53ea\u80fd\u662ffasta\u683c\u5f0f\uff0cfastq\u4f1a\u5bfc\u81f4\u7a0b\u5e8f\u5d29\u6e83\u3002<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\">\u5728\u5b89\u88c5\u524d\u8981\u5148\u5b89\u88c5\u914d\u7f6e\u597d\u4ed6\u7684\u4f9d\u8d56\u5305gcc 4.4+\u3001make 3.8+\u548cminimap2\u3002<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;margin-bottom: 12pt;text-indent: 0em;\"><strong><span style=\"font-size: 15px;color: rgb(171, 25, 66);\"><span style=\"font-size: 15px;color: rgb(171, 25, 66);font-family: "Times New Roman";font-variant: normal;text-transform: none;font-weight: bold;\">2.1 <\/span><span style=\"font-size: 15px;color: rgb(171, 25, 66);font-family: "Times New Roman";font-variant: normal;text-transform: none;font-weight: bold;background: rgb(255, 255, 255);\">GapCloser\u7684\u4e0b\u8f7d\u4e0e\u5b89\u88c5<\/span><\/span><\/strong><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\"><\/span><\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"bash\"><code><span class=\"code-snippet_outer\">\u5efa\u6587\u4ef6\u5939\u5e76\u8fdb\u5165\uff1amkdir GapCloser && <span class=\"code-snippet__built_in\">cd<\/span> GapCloser<\/span><\/code><code><span class=\"code-snippet_outer\">\u4e0b\u8f7d\u5b89\u88c5\u5305\u5e76\u89e3\u538b\uff1awget https:\/\/anaconda.org\/bioconda\/soapdenovo2-GapCloser\/1.12\/download\/linux-64\/soapdenovo2-GapCloser-1.12-1.tar.bz2<\/span><\/code><code><span class=\"code-snippet_outer\">tar -jxvf soapdenovo2-GapCloser-1.12-1.tar.bz2<\/span><\/code><code><span class=\"code-snippet_outer\">\u8fdb\u5165bin\u76ee\u5f55\uff1a<span class=\"code-snippet__built_in\">cd<\/span> bin\/<\/span><\/code><code><span class=\"code-snippet_outer\">\u67e5\u770b\u662f\u5426\u5b89\u88c5\u6210\u529f\uff1a.\/GapCloser -h<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\"><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\"><img decoding=\"async\" loading=\"lazy\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012759\" data-ratio=\"0.3491329479768786\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/9_YBolRvJKRxzoCFMI3GfKFKY8qk0amA.png?resize=553%2C188\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAyv5Zt69WdcXZibRz9fKGian39S5oWwd8SVI7d5SsibfJUNR28YBolRvJKRxzoCFMI3GfKFKY8qk0amA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"865\" height=\"188 .53997802734375\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-align: left;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"\"><strong>2.2. \u51c6\u5907\u8f93\u5165\u6587\u4ef6<\/strong><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);\">GapCloser\u9700\u8981\u4e24\u4e2a\u8f93\u5165\u6587\u4ef6\uff0c\u4e00\u4e2a\u662f\u7ec4\u88c5\u597d\u7684contig\u6587\u4ef6\uff0c\u53e6\u4e00\u4e2a\u662f\u6d4b\u5e8freads\u6587\u4ef6\u3002contig\u6587\u4ef6\u53ef\u4ee5\u662fsoapdenovo2\u6216\u5176\u4ed6\u8f6f\u4ef6\u8f93\u51fa\u7684fasta\u683c\u5f0f\u6587\u4ef6\uff0creads\u6587\u4ef6\u53ef\u4ee5\u662ffastq\u6216fasta\u683c\u5f0f\u6587\u4ef6\uff0c\u652f\u6301\u5355\u7aef\u6216\u53cc\u7aef\u6d4b\u5e8f\u6570\u636e\u3002\u5982\u679c\u6709\u591a\u4e2areads\u6587\u4ef6\uff0c\u53ef\u4ee5\u5c06\u5b83\u4eec\u653e\u5728\u4e00\u4e2a\u76ee\u5f55\u4e0b\uff0c\u5e76\u5728\u914d\u7f6e\u6587\u4ef6\u4e2d\u6307\u5b9a\u3002<\/span> <\/span><o:page><\/o:page><\/section>\n<section style=\"text-align: left;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"\"><strong>2.3 \u7f16\u5199\u914d\u7f6e\u6587\u4ef6<\/strong><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\">\u914d\u7f6e\u6587\u4ef6\u662f\u4e00\u4e2a\u6587\u672c\u6587\u4ef6\uff0c\u7528\u4e8e\u6307\u5b9a\u8f93\u5165\u8f93\u51fa\u6587\u4ef6\u7684\u8def\u5f84\u548c\u540d\u79f0\uff0c\u4ee5\u53ca\u4e00\u4e9b\u5176\u4ed6\u7684\u9009\u9879\u3002\u914d\u7f6e\u6587\u4ef6\u7684\u683c\u5f0f\u5982\u4e0b\uff1a<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\"><\/span><\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"ini\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">max_rd_len<\/span>=<span class=\"code-snippet__number\">150<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__section\">[LIB]<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">avg_ins<\/span>=<span class=\"code-snippet__number\">500<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">reverse_seq<\/span>=<span class=\"code-snippet__number\">0<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">asm_flags<\/span>=<span class=\"code-snippet__number\">3<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">map_len<\/span>=<span class=\"code-snippet__number\">32<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">q<\/span>=\/path\/to\/single\/reads.fq<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">q1<\/span>=\/path\/to\/read1.fq<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attr\">q2<\/span>=\/path\/to\/read2.fq<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"font-family: "Segoe UI";font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\"><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\">\u5176\u4e2d\uff0cmax_rd_len\u662f\u6d4b\u5e8freads\u7684\u6700\u5927\u957f\u5ea6\uff0cavg_ins\u662f\u63d2\u5165\u7247\u6bb5\u7684\u5e73\u5747\u957f\u5ea6\uff0creverse_seq\u662f\u662f\u5426\u9700\u8981\u53cd\u8f6c\u5e8f\u5217\uff0casm_flags\u662f\u6307\u5b9areads\u7528\u4e8e\u54ea\u4e2a\u9636\u6bb5\u7684\u7ec4\u88c5\uff081\u4e3acontig\u9636\u6bb5\uff0c2\u4e3ascaffold\u9636\u6bb5\uff0c3\u4e3a\u4e24\u8005\u90fd\u7528\uff09\uff0cmap_len\u662f\u6307\u5b9areads\u6bd4\u5bf9\u5230contig\u7684\u6700\u5c0f\u957f\u5ea6\uff0cq\u3001q1\u3001q2\u662f\u6307\u5b9a\u5355\u7aef\u6216\u53cc\u7aef\u6d4b\u5e8f\u6570\u636e\u7684\u8def\u5f84\u548c\u540d\u79f0\u3002\u5982\u679c\u6709\u591a\u4e2a\u6d4b\u5e8f\u5e93\uff0c\u53ef\u4ee5\u5728\u914d\u7f6e\u6587\u4ef6\u4e2d\u6dfb\u52a0\u591a\u4e2a[LIB]\u6bb5\u3002<\/span><\/section>\n<section style=\"text-align: left;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"\"><strong>2.4 \u8fd0\u884cGapCloser<\/strong><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\">\u8fd0\u884cGapCloser\u7684\u547d\u4ee4\u5982\u4e0b\uff1a<\/span><\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\"><code><span class=\"code-snippet_outer\">.\/GapCloser -a \/path\/to\/contig.fa -b \/path\/to\/config_file -o \/path\/to\/output_file -t number_of_threads<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);\">\u5176\u4e2d\uff0c-a\u662f\u6307\u5b9acontig\u6587\u4ef6\u7684\u8def\u5f84\u548c\u540d\u79f0\uff0c-b\u662f\u6307\u5b9a\u914d\u7f6e\u6587\u4ef6\u7684\u8def\u5f84\u548c\u540d\u79f0\uff0c-o\u662f\u6307\u5b9a\u8f93\u51fa\u6587\u4ef6\u7684\u8def\u5f84\u548c\u540d\u79f0\uff0c-t\u662f\u6307\u5b9a\u4f7f\u7528\u7684\u7ebf\u7a0b\u6570\u3002\u8fd0\u884c\u5b8c\u6210\u540e\uff0c\u8f93\u51fa\u6587\u4ef6\u4e2d\u4f1a\u5305\u542b\u586b\u8865\u597d\u7684gap\u7684scaffold\u5e8f\u5217\u3002<\/span> <\/span><o:page><\/o:page><\/section>\n<section style=\"text-align: left;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"\"><strong>2.5 \u5206\u6790\u7ed3\u679c<\/strong><\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\">\u53ef\u4ee5\u4f7f\u7528\u4e00\u4e9b\u5de5\u5177\u6765\u5206\u6790gap\u586b\u8865\u7684\u7ed3\u679c\uff0c\u6bd4\u5982\u7edf\u8ba1scaffold\u7684\u6570\u91cf\u3001\u957f\u5ea6\u3001N50\u7b49\u6307\u6807\uff0c\u6216\u8005\u6bd4\u5bf9\u5230\u53c2\u8003\u57fa\u56e0\u7ec4\u6765\u8bc4\u4f30\u7ec4\u88c5\u7684\u51c6\u786e\u6027\u548c\u5b8c\u6574\u6027\u3002\u4e5f\u53ef\u4ee5\u4f7f\u7528\u53ef\u89c6\u5316\u5de5\u5177\u6765\u67e5\u770bgap\u586b\u8865\u524d\u540e\u7684scaffold\u7ed3\u6784\u548c\u53d8\u5316\u3002<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;line-height: 150%;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;color: rgb(113, 113, 113);background: rgb(255, 255, 255);font-size: 15px;\">\u603b\u4e4b\uff0cKmerGenie\u548cGapCloser\u662f\u5e2e\u52a9\u6211\u4eec\u63d0\u9ad8\u7ec4\u88c5\u8d28\u91cf\u597d\u5e2e\u624b\uff0c\u9897\u4f60\u4e5f\u5bf9\u57fa\u56e0\u7ec4\u7ec4\u88c5\u611f\u5174\u8da3\uff0c\u90a3\u5c31\u81ea\u5df1\u52a8\u624b\u8bd5\u8bd5\u5427\uff01<\/span><\/section>\n<section style=\"text-align: left;margin-left: 0pt;line-height: normal;font-size: 12pt;font-family: \u7b49\u7ebf;font-weight: normal;text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"><\/span><\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"go\"><code><span class=\"code-snippet_outer\">gcc\uff1ahttps:<span class=\"code-snippet__comment\">\/\/gcc.gnu.org\/install\/download.html<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__built_in\">make<\/span>\uff1ahttps:<span class=\"code-snippet__comment\">\/\/www.gnu.org\/software\/make\/<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">zlib\uff1ahttps:<span class=\"code-snippet__comment\">\/\/www.zlib.net\/<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">kmergenie\uff1ahttp:<span class=\"code-snippet__comment\">\/\/kmergenie.bx.psu.edu\/<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">gapclode\uff1aFiles :: Anaconda.org<\/span><\/code><\/pre>\n<\/section>\n<section powered-by=\"xiumi.us\" style=\"margin-bottom: 0px;\">\n<section>\n<section powered-by=\"xiumi.us\">\n<section>\n<section powered-by=\"xiumi.us\">\n<section>\n<section powered-by=\"xiumi.us\">\n<section>\n<section>\n<p style=\"text-align: center;\"><a target=\"_blank\" href=\"http:\/\/mp.weixin.qq.com\/s?__biz=Mzg3OTg3MjQyNg==&mid=2247496554&idx=2&sn=e9bce5306709facbe58419cfd0a970e5&chksm=cf7f63aff808eab9333eb868d90020ad6a4e42481c690f1cf8234006a7e479b4bfe6bde6e537&scene=21#wechat_redirect\" textvalue=\"\u4f60\u5df2\u9009\u4e2d\u4e86\u6dfb\u52a0\u94fe\u63a5\u7684\u5185\u5bb9\" linktype=\"text\" imgurl=\"\" imgdata=\"null\" data-itemshowtype=\"0\" tab=\"innerlink\" data-linktype=\"1\" rel=\"noopener\"><span class=\"js_jump_icon h5_image_link\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-imgfileid=\"100013619\" data-ratio=\"0.35444444444444445\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/10_8icYhvgK1PSjsCmzwkrjUW4ibe58Ag.jpg?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_jpg\/zcicibWZessAw37y5lPcYRhYtNwozr1uSUBcUp88yxRGKwY8pycOQlGKLuLR8icYhvgK1PSjsCmzwkrjUW4ibe58Ag\/640?wx_fmt=jpeg&from=appmsg'\" data-type=\"jpeg\" data-w=\"900\" style=\"\" data-recalc-dims=\"1\" \/><\/span><\/a><span style=\"font-size: var(--articleFontsize);letter-spacing: 0.034em;\"><\/span><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<p style=\"margin-top: 0pt;margin-bottom: 0pt;margin-left: 0pt;letter-spacing: 0.578px;text-indent: 0pt;text-wrap: wrap;text-align: justify;line-height: normal;font-size: 12pt;font-family: helvetica;color: rgb(0, 0, 0);break-after: auto;\"><span style=\"font-family: \u5b8b\u4f53;font-size: 12pt;text-indent: 0pt;color: rgba(0, 0, 0, 0.9);letter-spacing: 0.034em;\"><\/span><span style=\"font-family: "Helvetica Neue", Helvetica, "Hiragino Sans GB", "Microsoft YaHei", Arial, sans-serif;font-size: 15px;color: rgba(0, 0, 0, 0.9);letter-spacing: 0.034em;text-align: justify;\"><\/span><span style=\"font-size: var(--articleFontsize);letter-spacing: 0.034em;color: rgba(0, 0, 0, 0.9);font-family: mp-quote, -apple-system-font, BlinkMacSystemFont, "Helvetica Neue", "PingFang SC", "Hiragino Sans GB", "Microsoft YaHei UI", "Microsoft YaHei", Arial, sans-serif;text-align: justify;\"><\/span><span style=\"font-size: 15px;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-imgfileid=\"100012766\" data-ratio=\"0.38981481481481484\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/11_FbEg9fibwQicL8l2ExKOZZTmAHXabQ-4.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAx3HetBkB7aOGibFWKqibqIATyC4zFibzCgdrxFwRep6cDMLIbA0FbEg9fibwQicL8l2ExKOZZTmAHXabQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"font-size: var(--articleFontsize);letter-spacing: 0.034em;caret-color: rgba(0, 0, 0, 0);\" data-recalc-dims=\"1\" \/><\/span><\/p>\n<section powered-by=\"xiumi.us\" style=\"margin-bottom: 0px;letter-spacing: 0.578px;text-wrap: wrap;outline: 0px;font-family: system-ui, -apple-system, BlinkMacSystemFont, "Helvetica Neue", "PingFang SC", "Hiragino Sans GB", "Microsoft YaHei UI", "Microsoft YaHei", Arial, sans-serif;background-color: rgb(255, 255, 255);text-align: left;\">\n<section style=\"outline: 0px;font-size: 16px;\">\n<section powered-by=\"xiumi.us\" style=\"margin: 10px;outline: 0px;justify-content: flex-start;display: flex;flex-flow: row;\">\n<section style=\"padding-right: 10px;padding-left: 10px;outline: 0px;display: inline-block;width: 558px;vertical-align: top;border-style: dashed;border-width: 1px;border-color: rgb(62, 62, 62);align-self: flex-start;flex: 0 0 auto;\">\n<section powered-by=\"xiumi.us\" style=\"margin-top: 10px;margin-bottom: 10px;outline: 0px;\">\n<section style=\"outline: 0px;display: inline-block;width: 536px;border-width: 0px 0px 0px 10px;border-style: solid;border-left-color: rgb(144, 215, 236);border-right-color: rgb(46, 172, 109);box-shadow: rgb(0, 0, 0) 0px 0px 0px;border-bottom-left-radius: 0px;\">\n<section powered-by=\"xiumi.us\" style=\"padding-right: 3px;padding-left: 3px;outline: 0px;\">\n<section style=\"margin-top: 0.95em;margin-bottom: -0.65em;outline: 0px;display: inline-block;width: 520px;vertical-align: top;\">\n<section style=\"margin-top: -1em;padding: 3px 10px;outline: 0px;display: inline-block;vertical-align: top;color: rgb(0, 154, 68);\">\n<p style=\"outline: 0px;\"><strong style=\"outline: 0px;\">\u5f80\u671f\u63a8\u8350<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section powered-by=\"xiumi.us\" style=\"outline: 0px;text-align: justify;\">\n<section style=\"outline: 0px;letter-spacing: 0.578px;line-height: 1.75em;\"><a target=\"_blank\" href=\"http:\/\/mp.weixin.qq.com\/s?__biz=Mzg3OTg3MjQyNg==&mid=2247491794&idx=1&sn=2b7a4de95169c79202e44813885a8250&chksm=cf7f7017f808f9015689839fe4057fd418bf7b20eb1dfb5a28cd92e56a41b5605e62bfbc16fb&scene=21#wechat_redirect\" textvalue=\"1.\u642d\u5efa\u751f\u4fe1\u5206\u6790\u6d41\u6c34\u7ebf\uff0c\u5982\u5de5\u5382\u4e00\u683724\u5c0f\u65f6\u8fd0\u8f6cSnakemake\u2014\u2014\u8fdb\u9636\u547d\u4ee4\" linktype=\"text\" imgurl=\"\" imgdata=\"null\" data-itemshowtype=\"0\" tab=\"innerlink\" data-linktype=\"2\" hasload=\"1\" style=\"color: var(--weui-LINK);outline: 0px;cursor: pointer;font-size: 14px;\" rel=\"noopener\">1.\u642d\u5efa\u751f\u4fe1\u5206\u6790\u6d41\u6c34\u7ebf\uff0c\u5982\u5de5\u5382\u4e00\u683724\u5c0f\u65f6\u8fd0\u8f6cSnakemake\u2014\u2014\u8fdb\u9636\u547d\u4ee4<\/a><br style=\"outline: 0px;\" \/><\/section>\n<section style=\"outline: 0px;letter-spacing: 0.578px;line-height: 1.75em;\"><a target=\"_blank\" 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