{"id":59162,"date":"2024-06-17T07:45:06","date_gmt":"2024-06-16T23:45:06","guid":{"rendered":"http:\/\/www.biocloudservice.com\/wordpress\/?p=59162"},"modified":"2024-06-17T07:45:06","modified_gmt":"2024-06-16T23:45:06","slug":"%e4%bf%9d%e5%a7%86%e7%ba%a7%e6%95%99%e7%a8%8b-%e4%ba%8c%e4%bb%a3%e6%b5%8b%e5%ba%8f%e5%9f%ba%e5%9b%a0%e7%bb%84%e6%95%b0%e6%8d%ae%e7%9a%84%e7%bb%84%e8%a3%85%e5%8f%8a%e5%9f%ba%e5%9b%a0%e9%a2%84","status":"publish","type":"post","link":"http:\/\/www.biocloudservice.com\/wordpress\/?p=59162","title":{"rendered":"\u4fdd\u59c6\u7ea7\u6559\u7a0b\u2014\u4e8c\u4ee3\u6d4b\u5e8f\u57fa\u56e0\u7ec4\u6570\u636e\u7684\u7ec4\u88c5\u53ca\u57fa\u56e0\u9884\u6d4b"},"content":{"rendered":"


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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 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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\">2023-07-31 19:00:14<\/em><\/div>\n<p><content><\/p>\n<div class=\"reprint\">\n<p>\u8f6c\u81ea\u516c\u4f17\u53f7\uff1a\u751f\u4fe1\u82b1<br \/><a href=\"http:\/\/mp.weixin.qq.com\/s?__biz=MzkzODUxNjcwMA==&mid=2247483890&idx=1&sn=33bb7176bb9f2650544ac4ede18fa4d3\" target=\"_blank\" title=\"\u9605\u8bfb\u539f\u6587\" rel=\"noopener\">http:\/\/mp.weixin.qq.com\/s?__biz=MzkzODUxNjcwMA==&mid=2247483890&idx=1&sn=33bb7176bb9f2650544ac4ede18fa4d3<\/a><\/p>\n<\/div>\n<section style=\"font-size: 14px;margin-bottom: 24px;\">\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: middle;width: auto;min-width: 5%;flex: 0 0 auto;height: auto;align-self: center;\">\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;transform: translate3d(1px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 35px;height: auto;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"1.596\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_so3L5d16mVGyo6jloOpmqzb1dPCRsQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TQMcibATWbaaBpn1cGrwAmHCX6so3L5d16mVGyo6jloOpmqzb1dPCRsQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"500\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;margin-left: -16px;\">\n<section style=\"justify-content: flex-start;display: flex;flex-flow: row;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;padding-right: 8px;\">\n<section style=\"font-size: 17px;margin-right: 0%;margin-left: 0%;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;border-width: 1px;border-style: solid;border-color: rgb(248, 217, 137);background-color: rgb(248, 217, 137);width: 1.8em;height: 1.8em;line-height: 1.5;border-radius: 100%;margin-left: auto;margin-right: auto;font-size: 19px;color: rgb(255, 255, 255);\">\n<p><strong>@<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;\">\n<section style=\"margin-top: 3px;\" powered-by=\"xiumi.us\">\n<section style=\"text-align: justify;\">\n<p>\u70b9\u51fb\u84dd\u5b57<\/p>\n<p><strong>\u5173\u6ce8\u6211\u4eec<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p>\u968f\u7740\u9ad8\u901a\u91cf\u6d4b\u5e8f\u6280\u672f\u7684\u53d1\u5c55\uff0c\u4e8c\u4ee3\u6d4b\u5e8f\u5982\u4eca\u8d8a\u6765\u8d8a\u666e\u53ca\uff0c\u6d4b\u5e8f\u8d39\u7528\u4e5f\u9010\u6e10\u964d\u4f4e\uff0c\u56e0\u6b64\u5f88\u591a\u7814\u7a76\u5f00\u59cb\u4f7f\u7528\u4e8c\u4ee3\u6d4b\u5e8f\u6280\u672f\u6765\u8fdb\u884c\u57fa\u56e0\u7ec4\u6d4b\u5e8f\uff0c\u4ece\u800c\u5f00\u5c55\u76f8\u5173\u7814\u7a76\u3002\u6bd4\u5982\u5728\u7cfb\u7edf\u5206\u7c7b\u5b66\u4e2d\uff0c\u7531\u4e8e\u57fa\u56e0\u7ec4\u7b49\u7ec4\u5b66\u6570\u636e\u5305\u542b\u66f4\u591a\u7684\u4f4d\u70b9\u4fe1\u606f\uff0c\u57fa\u4e8e\u57fa\u56e0\u7ec4\u7b49\u7ec4\u5b66\u6570\u636e\u5f00\u5c55\u7684\u7cfb\u7edf\u53d1\u80b2\u57fa\u56e0\u7ec4\u5b66\u5206\u6790\u53ef\u4ee5\u6709\u6548\u5730\u6d88\u9664\u57fa\u56e0\u6c34\u5e73\u8f6c\u79fb\u548c\u4e0d\u540c\u8fdb\u5316\u7387\u5bf9\u7cfb\u7edf\u53d1\u80b2\u7684\u5f71\u54cd\u3002\u56e0\u6b64\uff0c\u8fd1\u5e74\u6765\u57fa\u56e0\u7ec4\u6570\u636e\u8d8a\u6765\u8d8a\u591a\u7684\u88ab\u7528\u4e8e\u91cd\u5efa\u7cfb\u7edf\u53d1\u80b2\u6811\uff0c\u6765\u5398\u6e05\u4e00\u4e9b\u5b58\u5728\u4e89\u8bae\u7684\u7cfb\u7edf\u53d1\u80b2\u5173\u7cfb\u3002\u4f46\u662f\u5bf9\u4e8e\u4e00\u4e9b\u751f\u4fe1\u5c0f\u767d\u6765\u8bf4\uff0c\u5f53\u62ff\u5230\u4e8c\u4ee3\u6d4b\u5e8f\u7684\u57fa\u56e0\u7ec4\u539f\u59cb\u6570\u636e\u540e\u5374\u4e0d\u77e5\u9053\u5230\u5982\u4f55\u5bf9\u5176\u8fdb\u884c\u5904\u7406\u3002\u4eca\u5929\u5c0f\u82b1\u5c31\u7ed9\u5927\u5bb6\u5e26\u6765\u4e00\u5957\u4ece\u539f\u59cb\u6570\u636e\u5230\u57fa\u56e0\u9884\u6d4b\u7684\u4fdd\u59c6\u7ea7\u6559\u7a0b\u3002<\/p>\n<p>\u4ee5\u4e0b\u5206\u6790\u4e2d\u6240\u7528\u5230\u7684\u8f6f\u4ef6\u90fd\u53ef\u4ee5\u7528conda\u5b89\u88c5\uff0c\u6bd4\u5982fastqc\uff1a<br \/><\/p>\n<p>conda install -c bioconda fastqc<\/p>\n<p><br \/><\/p>\n<\/section>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row;margin-top: 10px;margin-bottom: 10px;transform: translate3d(-15px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: middle;width: auto;min-width: 5%;flex: 0 0 auto;height: auto;align-self: center;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;background-color: rgba(224, 225, 178, 0.47);padding: 13px;\">\n<section style=\"text-align: justify;color: rgb(125, 127, 90);\" powered-by=\"xiumi.us\">\n<p><strong>\u7b2c\u4e00\u6b65\uff1a\u5bf9\u539f\u59cb\u6570\u636e\u8fdb\u884c\u8d28\u91cf\u63a7\u5236<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p>\u5f53\u6211\u4eec\u62ff\u5230\u6d4b\u5e8f\u4e0b\u673a\u7684\u539f\u59cb\u6570\u636e\u540e\uff0c\u9700\u8981\u5bf9\u5b83\u8fdb\u884c\u4e00\u4e2a\u8d28\u63a7\uff0c\u867d\u7136\u6d4b\u5e8f\u516c\u53f8\u4e00\u822c\u90fd\u4f1a\u5bf9\u6570\u636e\u8fdb\u884c\u4e00\u4e2a\u9884\u5904\u7406\uff0c\u4f46\u662f\u4e3a\u4e86\u4fdd\u8bc1\u8d28\u91cf\uff0c\u6211\u4eec\u81ea\u5df1\u8fd8\u662f\u9700\u8981\u8fdb\u884c\u4e00\u904d\u8d28\u91cf\u63a7\u5236\u3002<\/p>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u2460\u9996\u5148\u4f7f\u7528fastqc\u67e5\u770b\u539f\u59cb\u6570\u636e\u7684\u8d28\u91cf\u60c5\u51b5\uff0c\u7ed3\u679c\u53ef\u67e5\u770b\u8f93\u51fa\u6587\u4ef6\u5939\u4e2d\u7684html\u683c\u5f0f\u6587\u4ef6\uff1a<\/p>\n<\/section>\n<section style=\"color: rgb(62, 62, 62);padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p>fastqc -o outputdir input.fastq<\/p>\n<p>-o:\u8f93\u51fa\u6587\u4ef6\u5939\u4f4d\u7f6e\uff0c\u9700\u5148\u81ea\u5df1\u5728\u5de5\u4f5c\u76ee\u5f55\u4e0b\u5efa\u7acb\u4e00\u4e2a\u6587\u4ef6\u5939\uff1b<\/p>\n<p>input.fastq\uff1a\u9700\u8981\u5206\u6790\u7684\u5e8f\u5217\u6587\u4ef6\uff0c\u53ef\u4f7f\u7528\u201c*.fastq\u201d\u540c\u65f6\u5206\u6790\u591a\u4e2a\u539f\u59cb\u6570\u636e\u3002<\/p>\n<p><br \/><\/p>\n<p><span style=\"color: rgb(148, 149, 44);font-size: 15px;\"><strong><span style=\"display: inline-block;\">\u547d\u4ee4\u793a\u4f8b\uff1a<\/span><\/strong><\/span><\/p>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.2822695035460993\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_RicdkG5dr52kluseOREWUTbcaWy54w.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8T7XElt3iaiawthVWg2wqBxU7B8x1RicdkG5dr52kluseOREWUTbcaWy54w\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"705\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p>\u7ed3\u679c\u6587\u4ef6\u5185\u5bb9\u8f83\u591a\uff0c\u5927\u5bb6\u53ef\u4ee5\u53c2\u8003\uff1a\u751f\u4fe1\u8f6f\u4ef6 | FastQC (\u6d4b\u5e8f\u6570\u636e\u8d28\u63a7) – \u77e5\u4e4e (zhihu.com)<\/p>\n<p>\u2461 \u7ecf\u8fc7\u4e0a\u8ff0\u6b65\u9aa4\uff0c\u6211\u4eec\u5bf9\u81ea\u5df1\u7684\u6570\u636e\u8d28\u91cf\u6709\u4e86\u4e00\u4e2a\u5927\u6982\u4e86\u89e3\uff0c\u5982\u679c\u8d28\u91cf\u8f83\u597d\u5c31\u53ef\u4ee5\u76f4\u63a5\u5f00\u59cb\u7ec4\u88c5\u4e86\uff0c\u8981\u662f\u8d28\u91cf\u4e0d\u592a\u597d\uff0c\u6211\u4eec\u5c31\u9700\u8981\u5bf9\u5176\u8fdb\u884c\u5904\u7406\uff0c\u4ee5\u53bb\u9664\u4f4e\u8d28\u91cf\u5e8f\u5217\u3002\u76ee\u524d\u5e38\u7528\u7684\u8d28\u63a7\u8f6f\u4ef6\u6709trimmomatic\u3001fastp\u3001cutadapt\u7b49\uff0c\u4eca\u5929\u5c0f\u82b1\u8fd9\u91cc\u7ed9\u5927\u5bb6\u4ecb\u7ecd\u4f7f\u7528trimmomatic\u8fdb\u884c\u8d28\u63a7\u7684\u65b9\u6cd5\u3002<\/p>\n<p><br \/><\/p>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\"><span style=\"font-size: 15px;\"><strong><span style=\"color: rgb(148, 149, 44);\">\u901a\u5e38\u6765\u8bf4\uff0c\u8d28\u91cf\u63a7\u5236\u7684\u6807\u51c6\u5982\u4e0b\uff1a<\/span><\/strong><\/span><\/p>\n<\/section>\n<section style=\"justify-content: flex-start;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 100%;vertical-align: top;border-width: 1px;border-radius: 8px;border-style: dotted;border-color: rgb(0, 0, 0);overflow: hidden;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin: 15px 0%;\" powered-by=\"xiumi.us\">\n<section style=\"color: rgb(62, 62, 62);padding-right: 15px;padding-left: 15px;\">\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">\u53bb\u9664\u5e26\u63a5\u5934 (adapter) \u7684reads\uff1b<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">\u53bb\u9664N (N\u8868\u793a\u65e0\u6cd5\u786e\u5b9a\u78b1\u57fa\u4fe1\u606f) \u7684\u6bd4\u4f8b\u5927\u4e8e5%\u7684reads\uff1b<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">\u53bb\u9664\u4f4e\u8d28\u91cfreads (\u8d28\u91cf\u5f97\u5206Q<10\u7684\u78b1\u57fa\u6570\u5360\u6574\u4e2aread\u957f\u5ea6\u768420\uff05\u4ee5\u4e0a\u7684reads)\uff1b<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">trimmomatic PE -threads 14 -phred33-baseoutILLUMINACLIP:TruSeq3-PE.fa:2:30:10 LEADING:20 TRAILING:20 SLIDINGWINDOW:4:25 MINLEN:120 AVGQUAL:28<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">PE\uff1a\u53cc\u7aef\u6d4b\u5e8f\u6587\u4ef6\u8fc7\u6ee4\uff0cSE\u4e3a\u5355\u7aef<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">-threads\uff1a\u6307\u5b9a\u7ebf\u7a0b\u6570<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">[-phred33 | -phred64]\uff1a\u78b1\u57fa\u8d28\u91cf\u7684\u8868\u793a\u65b9\u5f0f\uff0c\u4e00\u822c\u6765\u8bf4\u4e8c\u4ee3\u6d4b\u5e8f\u6570\u636e\u90fd\u662fphred33<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">\uff1a\u8981\u5904\u7406\u7684\u53cc\u7aef\u6d4b\u5e8f\u6570\u636e<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">-baseout\uff1a\u8f93\u51fa\u6587\u4ef6\uff0c\u53ef\u4ee5\u5728\u540e\u9762\u6307\u5b9a\u8f93\u51fa\u6587\u4ef6\u540d\u5b57\uff0cname.fq\u6216name.fq.gz<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">ILLUMINACLIP:\u6839\u636e\u5df2\u6709\u7684\u63a5\u5934\u5e8f\u5217\u6587\u4ef6\u6765\u53bb\u9664\u6d4b\u5e8f\u6570\u636e\u4e2d\u7684\u63a5\u5934\u5e8f\u5217\uff0c\u8fd9\u4e2a\u6587\u4ef6\u53ef\u4ee5\u81ea\u5df1\u5236\u5907\u4e5f\u53ef\u4ee5\u53bb\u5b98\u7f51\u4e0b\u8f7d\u5e38\u7528\u7684\u63a5\u5934\u6587\u4ef6\u3002<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">LEADING: 20\/TRAILING: 20\uff1a\u8bbe\u5b9a\u9608\u503c\uff0c\u8d28\u91cf\u4f4e\u4e8e\u9608\u503c\u7684\u8bdd\uff0c\u5206\u522b\u5728\u5934\/\u5c3e\u526a\u5207<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">SLIDINGWINDOW:4:25 \uff1a\u6267\u884c\u6ed1\u52a8\u7a97\u53e3\u4fee\u526a\uff0c\u4e00\u65e6\u7a97\u53e3\u5185\u7684\u5e73\u5747\u8d28\u91cf\u4f4e\u4e8e\u9608\u503c\uff0c\u5219\u5207\u5272\u3002<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">MINLEN:120\uff1a\u5982\u679creads\u77ed\u4e8e\u8be5\u957f\u5ea6\uff0c\u5219\u5220\u9664<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">AVGQUAL:28\uff1a\u5982\u679creads\u7684\u5e73\u5747\u78b1\u57fa\u8d28\u91cf\u4f4e\u4e8e\u8be5\u9608\u503c\u5219\u4e22\u5f03\u8fd9\u6761reads<\/span><\/p>\n<p>PE\u6a21\u5f0f\u4e0b\u6700\u7ec8\u4f1a\u6709\u56db\u4e2a\u8f93\u51fa\u6587\u4ef6\uff08\u5982\uff1aoutput_1_paired.fq.gz output_1_unpaired.fq.gz output_2_paired.fq.gz output_2_unpaired.fq.gz\uff09\uff0c\u540e\u7eed\u5206\u6790\u53ea\u7528*_paired.fq.gz\u7ed3\u5c3e\u7684\u6570\u636e\u6765\u5206\u6790\u3002\u5f53\u7136\u5982\u679c\u4f60\u4e0d\u653e\u5fc3\u5904\u7406\u7684\u7ed3\u679c\uff0c\u8fd8\u53ef\u4ee5\u518d\u7528fastqc\u770b\u4e0b\u6570\u636e\u8d28\u91cf\uff0c\u8981\u662f\u8fd8\u4e0d\u5408\u683c\uff0c\u5728\u8c03\u6574\u53c2\u6570\u8fdb\u884c\u8d28\u63a7\u3002<\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row;margin-top: 10px;margin-bottom: 10px;transform: translate3d(-15px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: middle;width: auto;min-width: 5%;flex: 0 0 auto;height: auto;align-self: center;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;background-color: rgba(224, 225, 178, 0.47);padding: 13px;\">\n<section style=\"text-align: justify;color: rgb(125, 127, 90);\" powered-by=\"xiumi.us\">\n<p><strong>\u7b2c\u4e8c\u6b65\uff1a\u8fdb\u884c\u7ec4\u88c5<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p>\u57fa\u56e0\u7ec4\u7ec4\u88c5\u53ef\u4ee5\u5206\u4e3a\u4ece\u5934\u7ec4\u88c5(De novo assembly) \u548c\u6620\u5c04\u6bd4\u5bf9\u7ec4\u88c5(mapping assembly),\u3002\u4ece\u5934\u7ec4\u88c5\u662f\u6307\u6ca1\u6709\u53c2\u8003\u57fa\u56e0\u7ec4\u60c5\u51b5\u4e0b\u5bf9\u57fa\u56e0\u7ec4\u5e8f\u5217\u8fdb\u884c\u62fc\u63a5\uff1b\uff1b\u6620\u5c04\u6bd4\u5bf9\u7ec4\u88c5\u5c31\u662f\u9700\u8981\u628a\u6d4b\u5e8f\u5e8f\u5217\u548c\u53c2\u8003\u57fa\u56e0\u7ec4\u6765\u6bd4\u5bf9\uff0c\u627e\u5230\u5e8f\u5217\u7684\u5bf9\u5e94\u4f4d\u7f6e\u518d\u8fdb\u884c\u7ec4\u88c5\u3002\u5c0f\u82b1\u8fd9\u91cc\u4ecb\u7ecd\u7684\u662f\u4ece\u5934\u7ec4\u88c5\u7684\u65b9\u6cd5\uff0c\u7528\u5230\u7684\u8f6f\u4ef6\u4e3aSPAdes\u3002<\/p>\n<p>SPAdes\u4e0d\u4ec5\u652f\u6301illumina\u6d4b\u5e8f\u6570\u636e\uff0c\u800c\u4e14\u8fd8\u53ef\u4ee5\u7528\u4e8eIon Torrent\u6d4b\u5e8f\u6570\u636e\uff0cPacBio\u6d4b\u5e8f\u6570\u636e\u3001sanger\u6570\u636e\uff0cNanopore\u3002<\/p>\n<p>spades.py \uff08-k 21,33,55,77\uff09 -1  -2  -o .\/output_dir -t 16 -m 800    #\u53cc\u7aef20G\u4ee5\u4e0a\u81f3\u5c11\u9700\u8981\u4e24\u5929\u65f6\u95f4<\/p>\n<p>-k\uff1akmer\u6570\uff0c\u4e00\u6b21\u53ef\u4ee5\u8f93\u5165\u591a\u4e2a\uff0c\u7528\u9017\u53f7\u5206\u9694\uff0ckmer\u6700\u5927\u4e3a127\uff1b\u5982\u679c\u4e0d\u77e5\u9053\uff0c\u53ef\u4ee5\u4e0d\u8f93\u5165\uff0c\u8f6f\u4ef6\u4f1a\u6839\u636e\u5e8f\u5217\u60c5\u51b5\u81ea\u52a8\u9009\u62e9\u3002<\/p>\n<p><br \/><\/p>\n<\/section>\n<section style=\"justify-content: flex-start;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 100%;vertical-align: top;border-width: 1px;border-radius: 8px;border-style: dotted;border-color: rgb(0, 0, 0);overflow: hidden;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin: 15px 0%;\" powered-by=\"xiumi.us\">\n<section style=\"color: rgb(62, 62, 62);padding-right: 15px;padding-left: 15px;\">\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">-1:\u8f93\u5165\u6d4b\u5e8f\u7ed3\u679c\u6587\u4ef61\uff1b-2:\u8f93\u5165\u6d4b\u5e8f\u7ed3\u679c\u6587\u4ef62\uff08\u6ce8\uff1a\u5982\u679c\u4e00\u4e2a\u7269\u79cd\u6709\u56db\u7ec4\u6d4b\u5e8f\u6570\u636e\uff0c\u53ef\u4ee5\u7528–mp1-1\uff0c–mp1-2\uff0c–mp2-1\uff0c–mp2-2\u6765\u8fdb\u884c\u6df7\u5408\u62fc\u63a5\uff09<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">   -o:\u8f93\u51fa\u6587\u4ef6\u5939\u4f4d\u7f6e<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">   -t:\u8fd0\u884c\u7ebf\u7a0b<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">   -m:\u8fd0\u884c\u6240\u9700\u6700\u5927\u5185\u5b58<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">\u53d6\u8f93\u51fa\u6587\u4ef6\u4e2d\u7684\u201cscaffolds.fasta\u201d\u6587\u4ef6\u7528\u4e8e\u540e\u7eed\u5206\u6790<\/span><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row;margin-top: 10px;margin-bottom: 10px;transform: translate3d(-15px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: middle;width: auto;min-width: 5%;flex: 0 0 auto;height: auto;align-self: center;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;background-color: rgba(224, 225, 178, 0.47);padding: 13px;\">\n<section style=\"text-align: justify;color: rgb(125, 127, 90);\" powered-by=\"xiumi.us\">\n<p><strong>\u7b2c\u4e09\u6b65\uff1a\u53bb\u9664\u5197\u4f59\u5e8f\u5217<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p>\u7ec4\u88c5\u5b8c\u540e\uff0c\u53ef\u80fd\u6709\u4e00\u4e9b\u76f8\u4f3c\u5e8f\u5217\uff0c\u8fd9\u4e9b\u76f8\u4f3c\u5e8f\u5217\u5bf9\u4e8e\u540e\u7eed\u5206\u6790\u4f1a\u9020\u6210\u5f71\u54cd\u540c\u65f6\u4e5f\u4f1a\u6d6a\u8d39\u4e00\u4e9b\u8ba1\u7b97\u8d44\u6e90\u3002\u56e0\u6b64\u7ec4\u88c5\u5b8c\u540e\u90fd\u9700\u8981\u8fdb\u884c\u53bb\u5197\u4f59\u64cd\u4f5c\u3002cd-hit \u5c31\u662f\u4e00\u6b3e\u7528\u4e8e\u86cb\u767d\u8d28\u5e8f\u5217\u6216\u6838\u9178\u5e8f\u5217\u7684\u76f8\u4f3c\u5ea6\u5bf9\u5e8f\u5217\u8fdb\u884c\u805a\u7c7b\u4ee5\u53bb\u9664\u5197\u4f59\u5e8f\u5217\u7684\u5de5\u5177\u3002<\/p>\n<\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">cd-hit-est -i scaffolds.fasta -o scaffolds_clean.fasta -<span class=\"code-snippet__built_in\">c<\/span> <span class=\"code-snippet__number\">0.98<\/span> -n <span class=\"code-snippet__number\">10<\/span> -r <span class=\"code-snippet__number\">1<\/span> -l <span class=\"code-snippet__number\">300<\/span> -M <span class=\"code-snippet__number\">40000<\/span> -<span class=\"code-snippet__built_in\">T<\/span> <span class=\"code-snippet__number\">8<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cd-hit\uff1a\u7528\u4e8e\u86cb\u767d\u8d28\u5e8f\u5217\u53bb\u5197\u4f59\uff1bcd-hit-est\uff1a\u7528\u4e8e\u6838\u82f7\u9178\u5e8f\u5217\u53bb\u5197\u4f59<\/span><\/code><code><span class=\"code-snippet_outer\">-i\uff1a\u8f93\u5165\u6587\u4ef6\uff0c\u7ec4\u88c5\u7684\u7ed3\u679c\u6587\u4ef6<\/span><\/code><code><span class=\"code-snippet_outer\">-o\uff1a\u8f93\u51fa\u6587\u4ef6\uff0cfasta\u683c\u5f0f\uff0c\u53ef\u81ea\u5df1\u547d\u540d<\/span><\/code><code><span class=\"code-snippet_outer\">-<span class=\"code-snippet__built_in\">c<\/span>\uff1a\u76f8\u4f3c\u6027\uff0c<span class=\"code-snippet__number\">0.98<\/span>\u8868\u793a\u76f8\u4f3c\u6027\u5927\u4e8e\u7b49\u4e8e<span class=\"code-snippet__number\">98<\/span>%\u7684\u4e3a\u4e00\u7c7b\uff0c\u5e76\u8fdb\u884c\u53bb\u5197\u4f59<\/span><\/code><code><span class=\"code-snippet_outer\">-n\uff1a\u4e24\u4e24\u5e8f\u5217\u8fdb\u884c\u5e8f\u5217\u6bd4\u5bf9\u65f6\u9009\u62e9\u7684 word size<\/span><\/code><code><span class=\"code-snippet_outer\">-M\uff1a\u5185\u5b58\u5927\u5c0f\uff0c40000=40GB<\/span><\/code><code><span class=\"code-snippet_outer\">-T\uff1a\u4f7f\u7528\u7684\u7ebf\u7a0b\u6570<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.16558861578266496\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_sRCD3xAFze5OyeQtfdQwuiavreibIA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TZMuuBQr9yCAcdUIC9tchwCa1HHsRCD3xAFze5OyeQtfdQwuiavreibIA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"773\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row;margin-top: 10px;margin-bottom: 10px;transform: translate3d(-15px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: middle;width: auto;min-width: 5%;flex: 0 0 auto;height: auto;align-self: center;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;background-color: rgba(224, 225, 178, 0.47);padding: 13px;\">\n<section style=\"text-align: justify;color: rgb(125, 127, 90);\" powered-by=\"xiumi.us\">\n<p><strong>\u7b2c\u56db\u6b65\uff1a\u8bc4\u4f30\u7ec4\u88c5\u8d28\u91cf<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p>\u53bb\u9664\u5197\u4f59\u5e8f\u5217\u540e\uff0c\u6211\u4eec\u5c31\u5f97\u5230\u4e86\u57fa\u56e0\u7ec4\u5e8f\u5217\u4e86\uff0c\u6211\u4eec\u53ef\u4ee5\u7528QUAST\u8bc4\u4f30\u4e00\u4e0b\u7ec4\u88c5\u8d28\u91cf\uff0c\u4e3b\u8981\u662f\u5bf9GC\u542b\u91cf\uff0cN50\uff0ccontigs\u6570\u91cf\u7b49\u8fdb\u884c\u7edf\u8ba1\u3002<\/p>\n<\/section>\n<section style=\"justify-content: flex-start;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 100%;vertical-align: top;border-width: 1px;border-radius: 8px;border-style: dotted;border-color: rgb(0, 0, 0);overflow: hidden;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin: 15px 0%;\" powered-by=\"xiumi.us\">\n<section style=\"color: rgb(62, 62, 62);padding-right: 15px;padding-left: 15px;\">\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\"> quast.py -t 10 -m 0 -o <\u6587\u4ef6\u5939><\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">  -t\uff1a\u7ebf\u7a0b\u6570  <\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">-m\uff1a\u5c0f\u4e8e\u6307\u5b9a\u957f\u5ea6\u7684contig\u4f1a\u88ab\u53bb\u9664\uff0c\u6211\u4eec\u8fd9\u91cc\u4e0d\u9700\u8981\u53bb\u9664\u6240\u4ee5\u4e3a0<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">-o\uff1a\u6307\u5b9a\u7ed3\u679c\u8f93\u51fa\u76ee\u5f55<\/span><\/p>\n<p><span style=\"text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">\uff1a\u53bb\u5197\u4f59\u540e\u7684\u5e8f\u5217\u6587\u4ef6<\/span><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.06740442655935613\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_UhPn7dIVTaJ03Juslu3XlOJib6JcBQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TLnmkDa6Ino3Q3q8ibUbSLrMPl0UhPn7dIVTaJ03Juslu3XlOJib6JcBQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"994\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p style=\"text-indent: 2em;text-wrap: wrap;\" powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row;margin-top: 10px;margin-bottom: 10px;transform: translate3d(-15px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: middle;width: auto;min-width: 5%;flex: 0 0 auto;height: auto;align-self: center;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;background-color: rgba(224, 225, 178, 0.47);padding: 13px;\">\n<section style=\"text-align: justify;color: rgb(125, 127, 90);\" powered-by=\"xiumi.us\">\n<p><strong>\u7b2c\u4e94\u6b65\uff1a\u57fa\u56e0\u9884\u6d4b<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u5bf9\u4e8e\u4e00\u4e9b\u6ca1\u6709\u53c2\u8003\u57fa\u56e0\u7ec4\u7684\u5e8f\u5217\u6765\u8bf4\uff0c\u8981\u60f3\u5f97\u5230\u86cb\u767d\u8d28\u5e8f\u5217\u7528\u4e8e\u540e\u7eed\u76f4\u7cfb\u540c\u6e90\u57fa\u56e0\u9274\u5b9a\uff0c\u529f\u80fd\u6ce8\u91ca\u7b49\u5206\u6790\u7684\u8bdd\uff0c\u5c31\u9700\u8981\u8fdb\u884c\u4ece\u5934\u9884\u6d4b\u3002Augustus\u5c31\u662f\u4e00\u6b3e\u7528\u4e8e\u4ece\u5934\u9884\u6d4b\u7684\u8f6f\u4ef6\uff0c\u8be5\u8f6f\u4ef6\u5185\u90e8\u5305\u542b\u4e86\u4e00\u4e9b\u7c7b\u7fa4\u7684\u57fa\u56e0\u9884\u6d4b\u6a21\u578b\uff08\u53ef\u4ee5\u7528augustus –species=help\u67e5\u770b\uff09\uff0c\u53ef\u4ee5\u7528\u6765\u76f4\u63a5\u5bf9\u81ea\u5df1\u7684\u7269\u79cd\u8fdb\u884c\u57fa\u56e0\u9884\u6d4b\u3002<\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u8fd9\u91cc\u4ee5\u62df\u5357\u82a5\u4e3a\u4f8b\uff1a<\/p>\n<\/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\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">augustus --species=arabidopsis test.fa > test.gff<\/span><\/code><\/pre>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p>\u5f53\u7136\u5bf9\u4e8e\u4e00\u4e9b\u6bd4\u8f83\u5c0f\u4f17\u7684\u7269\u79cd\uff0c\u53ef\u80fd\u6ca1\u6709\u88ab\u8bad\u7ec3\u8fc7\u7684\u7269\u79cd\uff0c\u8981\u60f3\u5bf9\u5176\u8fdb\u884c\u57fa\u56e0\u9884\u6d4b\uff0c\u5c31\u9700\u8981\u6211\u4eec\u5148\u8fdb\u884c\u6a21\u578b\u8bad\u7ec3\uff0c\u518d\u8fdb\u884c\u9884\u6d4b\u3002\u5177\u4f53\u6b65\u9aa4\u5982\u4e0b\uff1a<\/p>\n<p>\u9996\u5148\u662f\u8981\u51c6\u5907\u4e00\u79cd\u5df2\u77e5\u7269\u79cd\u7684\u6838\u9178\u5e8f\u5217\u548c\u6c28\u57fa\u9178\u5e8f\u5217\uff0c\u8be5\u7269\u79cd\u6700\u597d\u4e0e\u8981\u9884\u6d4b\u7269\u79cd\u7684\u4eb2\u7f18\u5173\u7cfb\u8981\u8fd1\uff0c\u540c\u5c5e\u7684\u662f\u6700\u597d\u7684\u3002<\/p>\n<p><br \/><\/p>\n<p><span style=\"background-color: rgb(255, 255, 255);color: rgb(148, 149, 44);\"><strong><span style=\"background-color: rgb(254, 255, 255);text-shadow: rgb(255, 253, 231) 0.766044px 0.642788px 2px;\">1\u3001\u5efa\u7acb\u8fde\u63a5\u5173\u7cfb<\/span><\/strong><\/span><\/p>\n<\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">   ln -s <\u57fa\u56e0.fasta>  genome.fa<\/span><\/code><code><span class=\"code-snippet_outer\">   ln -s <\u86cb\u767d\u8d28.fasta> proteins.aa<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.04814814814814815\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_a6ibQSCoaZN7A9toCoor3qTbD1CI7A.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TdvA0GSpCd8ZnLUElkYxiahSqdsa6ibQSCoaZN7A9toCoor3qTbD1CI7A\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"color: rgb(148, 149, 44);padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p><span style=\"background-color: rgb(255, 255, 255);\"><strong>2\u3001\u8fd0\u884cscipio\uff08\u4e0b\u8f7d\u5730\u5740 \uff09\u5236\u4f5c\u57fa\u56e0\u7ed3\u6784\u6587\u4ef6<\/strong><\/span><\/p>\n<\/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\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">perl <span class=\"code-snippet__number\">2<\/span>_scipio-<span class=\"code-snippet__number\">1.4<\/span>\/scipio.1.4.1.pl --blat_output=prot.vs.genome.psl <span class=\"code-snippet__number\">1<\/span>_refegene\/genome.fa <span class=\"code-snippet__number\">1<\/span>_refegene\/proteins.aa > <span class=\"code-snippet__number\">3<\/span>_traning\/scipio.yaml<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.022222222222222223\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_eup1H8ZJudiazBAlv7AoESU7NeURQw.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8T4UDHTAC0PNbqxZ7xWg7AllT4keup1H8ZJudiazBAlv7AoESU7NeURQw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"padding-right: 12px;padding-left: 12px;color: rgb(148, 149, 44);\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\"><span style=\"background-color: rgb(255, 255, 255);\"><strong>3\u3001\u4ecescipio.yaml\u4e2d\u63d0\u53d6GFF (General Feature Format) \u57fa\u56e0\u7ed3\u6784\u6587\u4ef6<\/strong><\/span><\/p>\n<\/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\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">cat <span class=\"code-snippet__number\">3<\/span>_training\/scipio.yaml | perl <span class=\"code-snippet__number\">2<\/span>_scipio<span class=\"code-snippet__number\">-1.4<\/span>\/yaml2gff<span class=\"code-snippet__number\">.1<\/span><span class=\"code-snippet__number\">.4<\/span>.pl > <span class=\"code-snippet__number\">3<\/span>_training\/scipio.scipiogff<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.041666666666666664\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_VFnH4bJkdMVfsrf68xnfxPicbCOB8Q.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TNLFgSaoXA0Whtia34Z8N161kseVFnH4bJkdMVfsrf68xnfxPicbCOB8Q\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/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\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">perl \/opt\/augustus**\/scripts\/scipiogff2gff.pl --<span class=\"code-snippet__keyword\">in<\/span>=scipio.scipiogff --out=scipio.gff<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.026851851851851852\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/8_pz3bhun9xxibw5RTIP6ozMPKvO2EFA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8Tt9BBZ8b88Nxy3tibovjH62vznhpz3bhun9xxibw5RTIP6ozMPKvO2EFA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"color: rgb(148, 149, 44);padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p><strong><span style=\"background-color: rgb(255, 255, 255);\">4\u3001\u5c06GFF\u6587\u4ef6\u8f6c\u5316\u6210Genbank\u683c\u5f0f\u7684\u6587\u4ef6<\/span><\/strong><\/p>\n<\/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\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">perl \/opt\/augustus**\/scripts\/gff2gbSmallDNA.pl scipio.gff genome.fa <span class=\"code-snippet__number\">1000<\/span> genes.raw.gb<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.019444444444444445\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/9_5QhO3OeWrCynMRwZwSXxRia1XQG1EQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TbLuct3O7A1R7eQp2ISpLOtrHm5QhO3OeWrCynMRwZwSXxRia1XQG1EQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"color: rgb(148, 149, 44);padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p><strong><span style=\"background-color: rgb(255, 255, 255);\">5\u3001\u53bb\u9664\u4e0d\u9002\u5408trainning\u7684\u57fa\u56e0\u5e8f\u5217<\/span><\/strong><\/p>\n<\/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\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">etraining --species=generic --stopCodonExcludedFromCDS=<span class=\"code-snippet__literal\">true<\/span> genes.raw.gb <span class=\"code-snippet__number\">2<\/span>> train.err<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.05925925925925926\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/10_x0Q1kV284w7ttMkO0iawMWpkHcPRZA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8T78wny4YfgsZCV8Q9RnOlcL0iaax0Q1kV284w7ttMkO0iawMWpkHcPRZA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/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\" data-lang=\"c\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__built_in\">printf<\/span>(<span class=\"code-snippet__string\">\"hello world!\"<\/span>);<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.028703703703703703\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/11_KHUPRg6JOeoibicqqb4VvuCheWH8eA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8T86eyuxibdianicTttYdhLOD5LySxzKHUPRg6JOeoibicqqb4VvuCheWH8eA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/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\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">perl \/opt\/augustus**\/scripts\/filterGenes.pl badgenes.lst genes.raw.gb > genes.gb<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.025925925925925925\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/12_ibwicnO1xxm477hHHtjG6B0pW1kiaA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8T7eYicZj10Nibf4xtibRzNW0O39uoemibwicnO1xxm477hHHtjG6B0pW1kiaA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/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\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">grep -c <span class=\"code-snippet__string\">\"LOCUS\"<\/span> genes.raw.gb genes.gb #(\u67e5\u770b\u5904\u7406\u540e\u57fa\u56e0\u5e8f\u5217\u60c5\u51b5)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.0947265625\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/13_hn9GRicBPxNl9wOBWJ8nj1g1UdnP2Q.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TnmtXGdBK3qUd4GkJjjhxZAJt3hn9GRicBPxNl9wOBWJ8nj1g1UdnP2Q\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1024\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"color: rgb(62, 62, 62);padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p><span style=\"color: rgb(148, 149, 44);\"><strong><span style=\"background-color: rgb(255, 255, 255);\">6\u3001\u5c06\u7528\u4e8eTrainning\u7684\u57fa\u56e0\u7ed3\u6784\u4fe1\u606f\u968f\u673a\u5206\u4e3aTrainning set\u548ctest set<\/span><\/strong><\/span><\/p>\n<p>perl \/opt\/augustus**\/scripts\/randomSplit.pl genes.gb 600<\/p>\n<p>\u4e3a\u4e86\u6ee1\u8db3test\u7684\u7edf\u8ba1\u5b66\u610f\u4e49\uff0ctest set\u5fc5\u987b\u8db3\u591f\u5927\uff0c\u624d\u80fd\u8d77\u5230\u68c0\u6d4b\u4f5c\u7528\uff0c\u8fd9\u91cc\u53d6600<\/p>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">grep -c LOCUS genes.gb*      #\uff08\u67e5\u770b\u5212\u5206\u540e\u5404\u81ea\u7684\u57fa\u56e0\u6570\u91cf\uff09<\/p>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.1037037037037037\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/14_h3PBhyqAZpZbzDc2tnZXMhMqWOLoaw.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TRMsshqADS8sHCSNA70G26cfOh3PBhyqAZpZbzDc2tnZXMhMqWOLoaw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"padding-right: 12px;padding-left: 12px;color: rgb(148, 149, 44);\" powered-by=\"xiumi.us\">\n<p><strong><span style=\"background-color: rgb(255, 255, 255);\">7\u3001\u5728\u7269\u79cd\u5e93\u6dfb\u52a0\u65b0\u7269\u79cd<\/span><\/strong><\/p>\n<\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">export AUGUSTUS_CONFIG_PATH=<span class=\"code-snippet__string\">\"\/usr\/local\/augustus\/config\"<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">perl \/opt\/augustus**\/scripts\/new_species.pl --species=<\u65b0\u7269\u79cd\u540d><\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.06759259259259259\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/15_LTUjybLaKEd4rxuVlOnScNZe11mkcg.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8T57OzrXgxBoMl51xtefu8Picx0LTUjybLaKEd4rxuVlOnScNZe11mkcg\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u7f16\u8f91bug_parameters.cfg\u6587\u4ef6\uff0c\u5c06stopCodonExcludedFromCDS \u6539\u4e3a true\uff08\u201ci\u201d\u8fdb\u5165\u7f16\u8f91\u6a21\u5f0f\uff0c\u4fee\u6539\u5b8c\u6210\u6309\u201cEsc\u201d\u9000\u51fa\u7f16\u8f91\u6a21\u5f0f\uff0c\u201c:wq\u201d+\u56de\u8f66\u4fdd\u5b58\u9000\u51fa\uff09<\/p>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.044444444444444446\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/16_z0WkVKqPnYMSUIbA8HibIzykTDgQPg.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TXUHn0xJPyoDG1fibItlibezDvg8z0WkVKqPnYMSUIbA8HibIzykTDgQPg\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"color: rgb(148, 149, 44);\" powered-by=\"xiumi.us\">\n<p><strong><span style=\"background-color: rgb(255, 255, 255);\">8\u3001training<\/span><\/strong><\/p>\n<\/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\" data-lang=\"c\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__built_in\">printf<\/span>(<span class=\"code-snippet__string\">\"hello world!\"<\/span>);<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.05744888023369036\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/17_ibKic6InkVGPymJda29gmwhdB7fV0A.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8Tll0aDhibuoqAtDkDVAeh9ZFbTQYibKic6InkVGPymJda29gmwhdB7fV0A\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1027\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"color: rgb(148, 149, 44);padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p><strong><span style=\"background-color: rgb(255, 255, 255);\">9\u3001\u6d4b\u8bd5<\/span><\/strong><\/p>\n<\/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\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">augustus --species=<\u65b0\u7269\u79cd\u540d> genes.gb.test | tee firsttest.out<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.053703703703703705\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/18_jIpBkgGicKqiaicBShm3NCQHDA1Xgw.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TscwVndBic1WPQVKzWGxz0PWCZGOOjIpBkgGicKqiaicBShm3NCQHDA1Xgw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p>grep -A 22 Evaluation firsttest.out  #\u67e5\u770b\u9884\u6d4b\u7ed3\u679c<\/p>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.5314814814814814\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/19_AWkBzBWepibl7dSQILmQvbL8kqK1UA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TrMbcJsHm4GDpMJs8lztNAQ8JPAWkBzBWepibl7dSQILmQvbL8kqK1UA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;color: rgb(148, 149, 44);\" powered-by=\"xiumi.us\">\n<p><span style=\"color: rgb(62, 62, 62);\">gene level\u7684sensitivity\u81f3\u5c11\u5927\u4e8e20%\uff0c\u5982\u679c\u7075\u654f\u5ea6\u4e0d\u9ad8\u53ef\u4ee5\u7528\u4ee5\u4e0b\u6b65\u9aa4\u81ea\u52a8\u8c03\u6574\u3002<\/span><\/p>\n<p><br \/><\/p>\n<p><strong><span style=\"background-color: rgb(255, 255, 255);\">10\u3001\u81ea\u52a8\u4f18\u5316\uff08\u53ef\u9009\uff0c\u901f\u5ea6\u6162\uff09\uff0c\u5b8c\u6210\u540e\u9700\u63097\u30018\u64cd\u4f5c\u518d\u8fdb\u884c\u4e00\u904d\u8bad\u7ec3\uff0c\u5426\u5219\u65e0\u7528<\/span><\/strong><\/p>\n<\/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\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">perl \/opt\/augustus<span class=\"code-snippet__number\">-3.3<\/span><span class=\"code-snippet__number\">.3<\/span>\/scripts\/optimize_augustus.pl --species=litonotus_sp <span class=\"code-snippet__number\">3<\/span>_training\/genes.gb.train<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.05185185185185185\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/20_k8YNUicx1DL3z4nf1yiat1t0icaeBg.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8T9TmPvwAMo1BKQmpu5fBU3uNSuI4k8YNUicx1DL3z4nf1yiat1t0icaeBg\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"color: rgb(148, 149, 44);padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p><strong><span style=\"background-color: rgb(255, 255, 255);\">11\u3001\u5bf9\u81ea\u5df1\u7684\u5e8f\u5217\u8fdb\u884c\u57fa\u56e0\u9884\u6d4b<\/span><\/strong><\/p>\n<\/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\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">augustus --species=<\u65b0\u7269\u79cd\u540d> (input.fasta) > (output.gff)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.044444444444444446\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/21_MBUL4X8KPTH7PhVJfkiaX6OdenOibw.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TjK5lYrETYOrYZCnvz9lexI6GCaMBUL4X8KPTH7PhVJfkiaX6OdenOibw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"padding-right: 12px;padding-left: 12px;color: rgb(148, 149, 44);\" powered-by=\"xiumi.us\">\n<p><strong><span style=\"background-color: rgb(255, 255, 255);\">12\u3001\u63d0\u53d6\u9884\u6d4b\u7ed3\u679c<\/span><\/strong><\/p>\n<\/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\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">perl \/usr\/local\/augustus\/scripts\/getAnnoFasta.pl GQ33.gff<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.05185185185185185\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/22_p0pxUC896anxvhpYLebsic2NEk19HQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8T57a7S2BBicfQXLA79gfahfT58Up0pxUC896anxvhpYLebsic2NEk19HQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 98%;vertical-align: top;align-self: flex-start;flex: 0 0 auto;height: auto;border-style: solid;border-width: 2px;border-color: rgb(160, 160, 160);padding: 27px;\">\n<section style=\"text-align: justify;line-height: 1.6;letter-spacing: 0px;padding-right: 6px;padding-left: 6px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 2em;text-wrap: wrap;\">\u597d\u4e86\uff0c\u57fa\u56e0\u7ec4\u4ece\u539f\u59cb\u6570\u636e\u5230\u57fa\u56e0\u9884\u6d4b\u5206\u6790\u7684\u539f\u8fc7\u7a0b\u5230\u6b64\u5c31\u7ed3\u675f\u4e86\u3002\u53ef\u4ee5\u8bf4\u662f\u5f88\u8be6\u7ec6\u4e86\uff0c\u4e0d\u77e5\u9053\u5927\u5bb6\u5b66\u4f1a\u4e86\u5417\uff1f\u6709\u4ec0\u4e48\u95ee\u9898\u90fd\u53ef\u4ee5\u548c\u5c0f\u82b1\u6765\u8ba8\u8bba\u54e6\uff01\u6211\u4eec\u4e0b\u671f\u518d\u89c1\uff01<\/p>\n<p><br \/><\/p>\n<p>\u6b22\u8fce\u4f7f\u7528\uff1a\u4e91\u751f\u4fe1  – \u5b66\u751f\u7269\u4fe1\u606f\u5b66 (biocloudservice.com)<\/p>\n<p><br \/><\/p>\n<p>\u63d0\u9192\uff1a\u4ee5\u4e0a\u5206\u6790\u4e2d\u6709\u4e00\u4e9b\u8f6f\u4ef6\u6bd4\u8f83\u8017\u65f6\uff0c\u4e14\u5bf9\u7535\u8111\u5185\u5b58\u7b49\u6027\u80fd\u8981\u6c42\u6bd4\u8f83\u9ad8\uff0c\u63a8\u8350\u5927\u5bb6\u7528\u670d\u52a1\u5668\u3002\u5982\u679c\u5927\u5bb6\u60f3\u7528\u670d\u52a1\u5668\u53ef\u4ee5\u8054\u7cfb\u5fae\u4fe1\uff1a18502195490\uff08\u5feb\u6765\u8054\u7cfb\u6211\u4eec\u4f7f\u7528\u5427\uff01\uff09<\/p>\n<\/section>\n<section style=\"text-align: right;justify-content: flex-end;display: flex;flex-flow: row;transform: translate3d(40px, 0px, 0px);margin-bottom: -40px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;align-self: flex-start;flex: 0 0 auto;min-width: 5%;height: auto;\">\n<section style=\"transform: rotateZ(45deg);\" powered-by=\"xiumi.us\">\n<section style=\"text-align: center;\">\n<section style=\"display: inline-block;width: 26px;height: 26px;vertical-align: top;overflow: hidden;background-color: rgb(255, 255, 255);border-left: 1px solid rgb(160, 160, 160);border-bottom-left-radius: 0px;\">\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p><a target=\"_blank\" href=\"https:\/\/mp.weixin.qq.com\/s?__biz=MzAwNjE0MDY3MQ==&mid=2650761303&idx=2&sn=6f73471d1e82c56c0b2160d0fcd32d53&scene=21#wechat_redirect\" textvalue=\"\" linktype=\"image\" imgurl=\"https:\/\/mmbiz.qpic.cn\/mmbiz_jpg\/KDvR2NrGicSYCoxhZfqr5L0fxy3C9eSFdt72DV7zqsmrNaiaaoOhic3sHzUpBN4r4MaBCk9p9v16yZwvMvS5nM7sQ\/0?wx_fmt=jpeg\" imgdata=\"[object Object]\" 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-ratio=\"0.35083798882681566\" data-s=\"300,640\" 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\/><\/p>\n<p>\uff08\u70b9\u51fb\u9605\u8bfb\u539f\u6587\u8df3\u8f6c\uff09<br \/><\/p>\n<p><br \/><\/p>\n<\/section>\n<section style=\"text-align: left;margin: 10px 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;min-width: 10%;vertical-align: top;padding-right: 20px;\">\n<section style=\"transform: translate3d(20px, 0px, 0px);margin: 10px 0% -30px;\" powered-by=\"xiumi.us\">\n<section style=\"color: rgb(62, 62, 62);text-align: justify;font-size: 12px;\">\n<p><strong><img decoding=\"async\" loading=\"lazy\" data-ratio=\"0.866\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/25_HKTKUQ0ibXibgTdtleiat7jkibl7Mg.gif?resize=18%2C15\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_gif\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TUYMRRDwibuyc0ibiaoWKoU4RSRVSun7HKTKUQ0ibXibgTdtleiat7jkibl7Mg\/640?wx_fmt=gif'\" data-type=\"gif\" data-w=\"500\" height=\"15\" style=\"width: 18px;height: 15px;\" width=\"18\" data-recalc-dims=\"1\" \/> \u70b9\u4e00\u4e0b\u9605\u8bfb\u539f\u6587\u4e86\u89e3\u66f4\u591a\u8d44\u8baf<\/strong><\/p>\n<\/section>\n<\/section>\n<section style=\"\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 50px;height: 40px;vertical-align: top;overflow: hidden;\">\n<section style=\"text-align: center;margin-right: 0%;margin-left: 0%;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.7709090909090909\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/26_O5tCPLBpOcwy7mQEKoAq6jmLJGuCfA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSbriaAzROtlibJtkyyrnF0n8TUNQxMKVnxr5SelqM69gQ9ica2O5tCPLBpOcwy7mQEKoAq6jmLJGuCfA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"275\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<p style=\"display: none;margin-bottom: 24px;\"><mp-style-type data-value=\"3\"><\/mp-style-type><\/p>\n<div class=\"msg_source_url\"><a href=\"http:\/\/www.biocloudservice.com\/home.html\" target=\"_blank\" rel=\"noopener\">\u9605\u8bfb\u539f\u6587<\/a><\/div>\n<p><\/content><\/p>\n<div class=\"msg_source_url\"><a href=\"http:\/\/www.biocloudservice.com\/home.html\" target=\"_blank\" rel=\"noopener\">\u9605\u8bfb\u539f\u6587<\/a><\/div>\n<\/div>\n<p><\/body><br \/>\n<\/html><\/p>\n","protected":false},"excerpt":{"rendered":"<p>\u4fdd\u59c6\u7ea7\u6559\u7a0b\u2014\u4e8c\u4ee3\u6d4b\u5e8f\u57fa\u56e0\u7ec4\u6570\u636e\u7684\u7ec4\u88c5\u53ca\u57fa\u56e0\u9884\u6d4b \u5c0f\u82b1  \u751f\u4fe1\u679c  20 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