{"id":54982,"date":"2024-06-16T16:08:07","date_gmt":"2024-06-16T08:08:07","guid":{"rendered":"http:\/\/www.biocloudservice.com\/wordpress\/?p=54982"},"modified":"2024-06-16T16:08:07","modified_gmt":"2024-06-16T08:08:07","slug":"%e4%b8%80%e7%9c%8b%e5%b0%b1%e4%bc%9a%e7%9a%84scrna-seq%e7%bb%86%e8%83%9e%e9%80%9a%e8%ae%af%e5%88%86%e6%9e%90%ef%bc%8c%e7%94%a8cellchat%e6%8f%ad%e7%a4%ba%e7%bb%86%e8%83%9e%e9%97%b4%e7%9a%84%e5%8a%a0","status":"publish","type":"post","link":"http:\/\/www.biocloudservice.com\/wordpress\/?p=54982","title":{"rendered":"\u4e00\u770b\u5c31\u4f1a\u7684scRNA-seq\u7ec6\u80de\u901a\u8baf\u5206\u6790\uff0c\u7528CellChat\u63ed\u793a\u7ec6\u80de\u95f4\u7684\u52a0\u5bc6\u901a\u8bdd"},"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 data={\"mp\":\"\u751f\u4fe1\u679c\",\"title\":\"\u4e00\u770b\u5c31\u4f1a\u7684scRNA-seq\u7ec6\u80de\u901a\u8baf\u5206\u6790\uff0c\u7528CellChat\u63ed\u793a\u7ec6\u80de\u95f4\u7684\u52a0\u5bc6\u901a\u8bdd\",\"time\":\"2023-12-04 19:00:22\",\"timeStamp\":\"1701687622\"};\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=2247496555&idx=1&sn=ed5d25a427bf8549f71b882277f7a5c0&chksm=cf7f63aef808eab89acfe39803c3989ed3a11bce3ea7e4d7236c0708e2c294a27c4c67b84c44#rd\" target=\"_blank\" rel=\"noopener\">\u4e00\u770b\u5c31\u4f1a\u7684scRNA-seq\u7ec6\u80de\u901a\u8baf\u5206\u6790\uff0c\u7528CellChat\u63ed\u793a\u7ec6\u80de\u95f4\u7684\u52a0\u5bc6\u901a\u8bdd<\/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\">2023-12-04 19:00:22<\/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=2812010014583390210#wechat_redirect\" title=\"R\u4ee3\u7801\" target=\"_blank\" rel=\"noopener\">#R\u4ee3\u7801<\/a><a href=\"https:\/\/mp.weixin.qq.com\/mp\/appmsgalbum?__biz=Mzg3OTg3MjQyNg==&action=getalbum&album_id=2821072943068839938#wechat_redirect\" title=\"\u751f\u4fe1\u7ed8\u56fe\" target=\"_blank\" rel=\"noopener\">#\u751f\u4fe1\u7ed8\u56fe<\/a><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><\/p>\n<\/div>\n<section style=\"text-indent: 0em;\" data-mpa-powered-by=\"yiban.io\"><span style=\"font-family: \u7b49\u7ebf;letter-spacing: 0.034em;font-size: 15px;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-imgfileid=\"100012392\" data-ratio=\"0.23333333333333334\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_rE2v0O5WiaUDJjgv5bxK2G1ePHyH2g-30.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=\"letter-spacing: 0.578px;text-align: center;text-wrap: wrap;\" data-recalc-dims=\"1\">\u4eb2\u7231\u7684\u679c\u7c89\u513f\u4eec\uff0c\u5c0f\u679c\u53c8\u6765\u548c\u5927\u5bb6\u5206\u4eab\u65b0\u77e5\u8bc6\u5566\uff01\u4eca\u5929\u6211\u8981\u544a\u8bc9\u5927\u5bb6\u7684\u662f\uff0c\u7ec6\u80de\u4e4b\u95f4\u5e76\u4e0d\u662f\u5b64\u7acb\u5b58\u5728\u7684\uff0c\u4ed6\u4eec\u5176\u5b9e\u662f\u901a\u8fc7\u4e00\u79cd\u795e\u79d8\u7684\u65b9\u5f0f\u2014\u2014\u7ec6\u80de\u901a\u8baf\uff0c\u6765\u8fdb\u884c\u4fe1\u606f\u7684\u4f20\u9012\u3002\u800c\u5c0f\u679c\u4eca\u5929\u8981\u8bb2\u7684CellChat\uff0c\u5c31\u662f\u90a3\u628a\u53ef\u4ee5\u89e3\u5bc6\u8fd9\u79cd\u901a\u8baf\u7684\u795e\u5947\u94a5\u5319\uff01\u63a5\u4e0b\u6765\uff0c\u5c31\u8ba9\u5c0f\u679c\u5e26\u5927\u5bb6\u4e00\u8d77\u7834\u89e3\u4ed6\u4eec\u7684\u52a0\u5bc6\u901a\u8bdd\u5427\u3002<\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\">CellChat\uff0c\u4f60\u662f\u8c01\uff1f<\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\">CellChat\u662f\u4e00\u4e2a\u57fa\u4e8eR\u7f16\u5199\u7684\u5de5\u5177\u5305\uff0c\u5b83\u80fd\u5e2e\u52a9\u6211\u4eec\u5206\u6790\u5e76\u53ef\u89c6\u5316\u5355\u7ec6\u80de\u6570\u636e\uff08scRNA-seq\uff09\u4e2d\u7684\u7ec6\u80de\u95f4\u901a\u8baf\uff0c\u5b9a\u91cf\u63a8\u65ad\u548c\u5206\u6790\u7ec6\u80de\u95f4\u901a\u8baf\u7f51\u7edc\u3002CellChat\u4f7f\u7528\u7f51\u7edc\u5206\u6790\u548c\u6a21\u5f0f\u8bc6\u522b\u65b9\u6cd5\u9884\u6d4b\u7ec6\u80de\u7684\u4e3b\u8981\u4fe1\u53f7\u8f93\u5165\u548c\u8f93\u51fa\uff0c\u4ee5\u53ca\u8fd9\u4e9b\u7ec6\u80de\u548c\u4fe1\u53f7\u5982\u4f55\u534f\u8c03\u529f\u80fd\u3002\u901a\u8fc7\u6d41\u5f62\u5b66\u4e60\u548c\u5b9a\u91cf\u5bf9\u6bd4\uff0cCellChat\u5bf9\u4fe1\u53f7\u901a\u8def\u8fdb\u884c\u5206\u7c7b\uff0c\u5e76\u63cf\u7ed8\u51fa\u4e0d\u540c\u6570\u636e\u96c6\u4e2d\u7684\u4fdd\u5b88\u901a\u8def\u548c\u4e0a\u4e0b\u6587\u7279\u5b9a\u901a\u8def\u3002\u7528\u5b83\uff0c\u6211\u4eec\u5c31\u53ef\u4ee5\u63ed\u793a\u90a3\u4e9b\u770b\u4f3c\u65e0\u5173\u7684\u7ec6\u80de\uff0c\u5b9e\u9645\u4e0a\u662f\u5982\u4f55\u5bc6\u5207\u6c9f\u901a\u7684\u3002\u8fd9\u4e2a\u5de5\u5177\u6700\u65e9\u53d1\u8868\u5728Nature Communications\uff08<\/span><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\">https:\/\/www.nature.com\/articles\/s41467-021-21246-9<\/span><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\">\uff09\u4e0a\uff0c\u611f\u5174\u8da3\u7684\u4f19\u4f34\u53ef\u4ee5\u5148\u7779\u4e3a\u5feb\u3002<\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;\">\u4f5c\u8005\u9664\u4e86\u5f00\u53d1\u4e86\u53ef\u5728R\u73af\u5883\u4e2d\u4f7f\u7528\u7684\u5de5\u5177\u5305\uff0c\u8fd8\u6784\u5efa\u4e86\u4e00\u4e2a\u914d\u4f53\uff0c\u53d7\u4f53\u53ca\u5176\u8f85\u56e0\u5b50\u4e4b\u95f4\u76f8\u4e92\u4f5c\u7528\u7684\u6570\u636e\u5e93CellChatDB\uff0c\u8fd9\u4e9b\u76f8\u4e92\u4f5c\u7528\u51c6\u786e\u5730\u4ee3\u8868\u4e86\u5df2\u77e5\u7684\u5f02\u6784\u4f53\u5206\u5b50\u590d\u5408\u7269\u3002\u540c\u65f6\u6211\u4eec\u8fd8\u53ef\u4ee5\u5728\u7f51\u9875\uff08http:\/\/www.cellchat.org\uff09\u4e0a\u67e5\u770b\u5df2\u88ab\u4f5c\u8005\u5206\u6790\u8fc7\u7684\u7ec6\u80de\u95f4\u901a\u8baf\u7f51\u7edc\u3002<\/span>    <\/span><o:page><\/o:page><\/section>\n<section style=\"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=\"100012253\" data-ratio=\"0.675\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_NDaFaibzWdSf2BZcbVShJWPWne5FZw.png?resize=553%2C373\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAxPqeNQsFjm2HibIuSld9Nh9micXN5mwoh8btR5XYhvMhCFKScNDaFaibzWdSf2BZcbVShJWPWne5FZw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"760\" height=\"373 .80999755859375\" width=\"553 .739990234375\" data-recalc-dims=\"1\"><\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\">\u5c3d\u7ba1\u5e02\u9762\u4e0a\u5b58\u5728\u8bb8\u591a\u7684\u7ec6\u80de\u901a\u8baf\u5de5\u5177\uff0c\u4f46\u65e0\u4e00\u4f8b\u5916\u90fd\u88ab\u4f5c\u8005Diss\uff0c\u72ec\u7231CellChat\uff0c\u8be5\u5de5\u5177\u5230\u5e95\u6709\u591a\u725b\uff0c\u54b1\u4eec\u62c9\u51fa\u6765\u7ec3\u4e00\u7ec3\u3002<\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\">CellChat\uff0c\u5b9e\u6218\u6f14\u7ec3<\/span><\/section>\n<section style=\"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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"apache\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u52a0\u8f7d\u5de5\u5177\u5305<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attribute\">library<\/span>(CellChat)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attribute\">library<\/span>(patchwork)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attribute\"><span class=\"code-snippet__nomarkup\">options<\/span><\/span>(stringsAsFactors = FALSE)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\"># \u7b2c\u4e00\u90e8\u5206\uff1aCellChat\u7684\u8f93\u5165\u6570\u636e\u51c6\u5907<\/span><\/section>\n<section style=\"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<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<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<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"php\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># CellChat\u9700\u8981\u4e24\u4e2a\u8f93\u5165\u6587\u4ef6\uff1a\u4e00\u4e2a\u662f\u6807\u51c6\u5316\u7684\u57fa\u56e0\u8868\u8fbe\u77e9\u9635\uff0c\u800c\u53e6\u4e00\u4e2a\u662f\u7ec6\u80de\u5206\u7ec4\u4fe1\u606f\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8fd9\u91cc\u6211\u4eec\u4e0b\u8f7d\u5e76\u8f7d\u5165\u5b98\u65b9\u63d0\u4f9b\u7684\u793a\u4f8b\u6587\u4ef6<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u5305\u542b\u6b63\u5e38\uff08NL\uff09\u548c\u75be\u75c5\uff08LS\uff09\u4e24\u79cd\u6837\u672c\uff08https:\/\/ndownloader.figshare.com\/files\/25950872\uff09 <\/span><\/span><\/code><code><span class=\"code-snippet_outer\">load(<span class=\"code-snippet__string\">\"data_humanSkin_CellChat.rda\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u63d0\u53d6\u6807\u51c6\u5316\u77e9\u9635<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">data.input = data_humanSkin$data<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u63d0\u53d6\u7ec6\u80de\u5206\u7ec4\u4fe1\u606f\uff0cmeta\u662f\u4e00\u4e2a\u6570\u636e\u6846\uff0c\u5305\u542b\u793a\u4f8b\u6570\u636e\u4e2d\u7ec6\u80de\u7c7b\u578b\u3001\u6279\u6b21\u3001\u6837\u672c\u7b49\u4fe1\u606f<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">meta = data_humanSkin$meta <\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u6b64\u5904\u6211\u4eec\u53ea\u63d0\u53d6\u75be\u75c5\u6570\u636e\u505a\u540e\u7eed\u5206\u6790<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cell.<span class=\"code-snippet__keyword\">use<\/span> = rownames(meta)[meta$condition == <span class=\"code-snippet__string\">\"LS\"<\/span>]<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u51c6\u5907CelChat\u5206\u6790\u7684\u8f93\u5165\u6570\u636e<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">data.input = data.input[, cell.<span class=\"code-snippet__keyword\">use<\/span>]<\/span><\/code><code><span class=\"code-snippet_outer\">meta = meta[cell.<span class=\"code-snippet__keyword\">use<\/span>, ]<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u67e5\u770b\u7ec6\u80de\u7c7b\u578b\u6807\u7b7e<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">unique(meta$labels)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u521b\u5efaCellChat\u5bf9\u8c61<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cellchat <- createCellChat(object = data.input, meta = meta, group.by = <span class=\"code-snippet__string\">\"labels\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u7ed9cellchat\u5bf9\u8c61\u6dfb\u52a0\u5143\u6570\u636e <\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cellchat <- addMeta(cellchat, meta = meta)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8bbe\u7f6e\"labels\"\u4f5c\u4e3a\u9ed8\u8ba4\u7684\u7ec6\u80de\u6807\u7b7e<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cellchat <- setIdent(cellchat, ident.<span class=\"code-snippet__keyword\">use<\/span> = <span class=\"code-snippet__string\">\"labels\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u663e\u793a\u6709\u591a\u5c11\u79cd\u7ec6\u80de\u7c7b\u578b<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">levels(cellchat@idents) <\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u67e5\u770b\u6bcf\u79cd\u7ec6\u80de\u7c7b\u578b\u7684\u7ec6\u80de\u6570<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">groupSize <- <span class=\"code-snippet__keyword\">as<\/span>.numeric(table(cellchat@idents))<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u8bbe\u7f6e\u914d\u4f53-\u53d7\u4f53\u76f8\u4e92\u4f5c\u7528\u6570\u636e\u5e93\uff0cCellChatDB\u63d0\u4f9b\u4eba\u7c7b\u548c\u9f20\u4e24\u4e2a\u7269\u79cd\u7684\u6570\u636e\u5e93<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u5982\u679c\u5206\u6790\u7684\u662f\u9f20\u7c7b\u6570\u636e\u5219\u8bbe\u7f6eCellChatDB.mouse<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">CellChatDB <- CellChatDB.human <\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u5c55\u793a\u6570\u636e\u5e93\u4e2d\u5177\u4f53\u4fe1\u606f\uff0c\u4eba\u7c7bCellChatDB\u5305\u542b1,939\u4e2a\u7ecf\u8fc7\u9a8c\u8bc1\u7684\u5206\u5b50\u76f8\u4e92\u4f5c\u7528\uff0c\u5305\u62ec61.8%\u7684\u65c1\u5206\u6ccc\/\u81ea\u5206\u6ccc\u4fe1\u53f7\u76f8\u4e92\u4f5c\u7528\uff0c21.7%\u7684\u7ec6\u80de\u5916\u57fa\u8d28(ECM)\u53d7\u4f53\u76f8\u4e92\u4f5c\u7528\u548c16.5%\u7684\u7ec6\u80de-\u7ec6\u80de\u63a5\u89e6\u76f8\u4e92\u4f5c\u7528\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">showDatabaseCategory(CellChatDB)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"><\/span><\/section>\n<section style=\"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=\"100012251\" data-ratio=\"0.4168975069252078\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_QkNv9Gp58Gw5oG8nEkB2HxgfXffN4A.png?resize=314%2C131\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAxPqeNQsFjm2HibIuSld9Nh93t8a2yvWsn59HJ9Vn9xZKhZTQkNv9Gp58Gw5oG8nEkB2HxgfXffN4A\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"722\" height=\"131 .07998657226562\" width=\"314 .57000732421875\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"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<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<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"php\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u5c55\u793a\u6570\u636e\u5e93\u7ed3\u6784<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">dplyr::glimpse(CellChatDB$interaction)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u4f7f\u7528CellChatDB\u7684\u5b50\u96c6\u8fdb\u884c\u7ec6\u80de-\u7ec6\u80de\u901a\u8baf\u5206\u6790<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">CellChatDB.<span class=\"code-snippet__keyword\">use<\/span> <- subsetDB(CellChatDB, search = <span class=\"code-snippet__string\">\"Secreted Signaling\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u5728\u5bf9\u8c61\u4e2d\u8bbe\u7f6e\u6211\u4eec\u8981\u4f7f\u7528\u7684\u6570\u636e\u5e93<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cellchat@DB <- CellChatDB.<span class=\"code-snippet__keyword\">use<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u9884\u5904\u7406\u7ec6\u80de-\u7ec6\u80de\u901a\u8baf\u5206\u6790\u7684\u8868\u8fbe\u6570\u636e<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u4f7f\u7528subsetData\u51fd\u6570\uff0c\u6bd4\u5bf9\u6574\u4e2a\u6570\u636e\u5e93\uff0c\u7b5b\u9009\u51facellchat\u5bf9\u8c61\u4e2d\u6709\u610f\u4e49\u7684\u57fa\u56e0\u548c\u7ec6\u80de\uff0c<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cellchat <- subsetData(cellchat) <\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8bbe\u7f6e\u5e76\u884c\u8ba1\u7b97\u7684\u6a21\u5f0f\u548c\u5de5\u4f5c\u6570\uff0c\u52a0\u5feb\u540e\u7eed\u7684\u5206\u6790\u901f\u5ea6\uff0c\u8fd9\u91cc\u8bbe\u7f6e\u4e3a\u591a\u8fdb\u7a0b\u6a21\u5f0f\uff0c\u6307\u5b9a\u4e864\u4e2a\u5de5\u4f5c\u6570\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">future::plan(<span class=\"code-snippet__string\">\"multiprocess\"<\/span>, workers = <span class=\"code-snippet__number\">4<\/span>) <\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u4f7f\u7528identifyOverExpressedGenes\u51fd\u6570\uff0c\u8bc6\u522bcellchat\u5bf9\u8c61\u4e2d\u6bcf\u4e2a\u7ec6\u80de\u7c7b\u578b\u4e2d\u76f8\u5bf9\u4e8e\u5176\u4ed6\u7ec6\u80de\u7c7b\u578b\u8fc7\u8868\u8fbe\u7684\u57fa\u56e0\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cellchat <- identifyOverExpressedGenes(cellchat)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u4f7f\u7528identifyOverExpressedInteractions\u51fd\u6570\uff0c\u8bc6\u522b\u51facellchat\u5bf9\u8c61\u4e2d\u6bcf\u4e2a\u7ec6\u80de\u7c7b\u578b\u4e2d\u76f8\u5bf9\u4e8e\u5176\u4ed6\u7ec6\u80de\u7c7b\u578b\u8fc7\u8868\u8fbe\u7684\u914d\u4f53-\u53d7\u4f53\u5bf9\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cellchat <- identifyOverExpressedInteractions(cellchat)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u5c06\u57fa\u56e0\u8868\u8fbe\u6570\u636e\u6295\u5c04\u5230PPI\uff0c\u8fd9\u6837\u505a\u7684\u76ee\u7684\u662f\u4e3a\u4e86\u5bfb\u627e\u90a3\u4e9b\u53ef\u80fd\u53c2\u4e0e\u7ec6\u80de\u95f4\u901a\u8baf\u7684\u86cb\u767d\u8d28\u590d\u5408\u7269\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cellchat <- projectData(cellchat, PPI.human)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\"># \u7b2c\u4e8c\u90e8\u5206:\u7ec6\u80de-\u7ec6\u80de\u901a\u4fe1\u7f51\u7edc\u7684\u63a8\u8bba<\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-imgfileid=\"100012446\" data-ratio=\"0.38981481481481484\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_IWicymEetCc6Enf2BkUE4Yz1Ya5e5w.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=\"letter-spacing: 0.578px;text-wrap: wrap;text-align: center;\" data-recalc-dims=\"1\"><\/span><\/section>\n<section style=\"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<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=\"nginx\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># computeCommunProb\u51fd\u6570\uff0c\u8ba1\u7b97cellchat\u5bf9\u8c61\u4e2d\u6bcf\u5bf9\u7ec6\u80de\u7c7b\u578b\u4e4b\u95f4\u7684\u901a\u8baf\u6982\u7387\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attribute\">cellchat<\/span> <- computeCommunProb(cellchat)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u5982\u679c\u67d0\u4e9b\u7ec6\u80de\u7c7b\u578b\u4e2d\u53ea\u6709\u5c11\u91cf\u7ec6\u80de\uff0c\u5219\u8fc7\u6ee4\u6389\u7ec6\u80de\u95f4\u901a\u4fe1<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cellchat <- filterCommunication(cellchat, min.cells = <span class=\"code-snippet__number\">10<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># computeCommunProbPathway\u51fd\u6570\uff0c\u8ba1\u7b97cellchat\u5bf9\u8c61\u4e2d\u6bcf\u5bf9\u7ec6\u80de\u7c7b\u578b\u4e4b\u95f4\u7684\u901a\u8baf\u901a\u8def\u6982\u7387\uff0c\u901a\u8baf\u901a\u8def\u6982\u7387\u662f\u6307\u5728\u7ed9\u5b9a\u7684\u4fe1\u53f7\u5206\u5b50\u5bf9\u4e0b\uff0c\u4e00\u4e2a\u7ec6\u80de\u7c7b\u578b\u5411\u53e6\u4e00\u4e2a\u7ec6\u80de\u7c7b\u578b\u53d1\u9001\u4fe1\u53f7\u7684\u6982\u7387\uff0c\u540c\u65f6\u8003\u8651\u4e86\u4fe1\u53f7\u5206\u5b50\u5bf9\u6240\u5c5e\u7684\u901a\u8baf\u901a\u8def\uff08communication pathway\uff09\uff0c\u901a\u8baf\u901a\u8def\u662f\u6307\u4e00\u7ec4\u5177\u6709\u76f8\u540c\u6216\u8005\u76f8\u4f3c\u529f\u80fd\u7684\u4fe1\u53f7\u5206\u5b50\u5bf9\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cellchat <- computeCommunProbPathway(cellchat)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u8ba1\u7b97\u805a\u5408\u7ec6\u80de-\u7ec6\u80de\u901a\u4fe1\u7f51\u7edc<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">cellchat <- aggregateNet(cellchat)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u6211\u4eec\u8fd8\u53ef\u4ee5\u770b\u5230\u805a\u5408\u7684\u7ec6\u80de-\u7ec6\u80de\u901a\u4fe1\u7f51\u7edc\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">groupSize <- as.numeric(table(cellchat<span class=\"code-snippet__variable\">@idents<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u5c06\u56fe\u5f62\u8bbe\u5907\u5206\u4e3a\u4e00\u884c\u4e24\u5217\u7684\u5e03\u5c40\uff0c\u7528\u6765\u663e\u793a\u4e24\u4e2a\u56fe\u5f62\u3002\u8bbe\u7f6expd\u53c2\u6570\u4e3aTRUE\uff0c\u8868\u793a\u5141\u8bb8\u56fe\u5f62\u5143\u7d20\u8d85\u51fa\u56fe\u5f62\u533a\u57df\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">par(mfrow = c(<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">2<\/span>), xpd=TRUE)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u4f7f\u7528netVisual_circle\u51fd\u6570\uff0c\u7ed8\u5236cellchat\u5bf9\u8c61\u4e2d\u7684net\u5143\u7d20\u4e2d\u7684count\u548cweight\u4e24\u4e2a\u77e9\u9635#\u7684\u5706\u5f62\u7f51\u7edc\u56fe\uff0ccount\u77e9\u9635\u8868\u793a\u6bcf\u5bf9\u7ec6\u80de\u7c7b\u578b\u4e4b\u95f4\u7684\u901a\u8baf\u4fe1\u53f7\u5bf9\u7684\u6570\u91cf\uff0cweight\u77e9\u9635\u8868\u793a#\u6bcf\u5bf9\u7ec6\u80de\u7c7b\u578b\u4e4b\u95f4\u7684\u901a\u8baf\u6982\u7387\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">netVisual_circle(cellchat<span class=\"code-snippet__variable\">@net<\/span><span class=\"code-snippet__variable\">$count<\/span>, vertex.weight = groupSize, weight.scale = T, label.edge= F, title.name = <span class=\"code-snippet__string\">\"Number of interactions\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">netVisual_circle(cellchat<span class=\"code-snippet__variable\">@net<\/span><span class=\"code-snippet__variable\">$weight<\/span>, vertex.weight = groupSize, weight.scale = T, label.edge= F, title.name = <span class=\"code-snippet__string\">\"Interaction weights\/strength\"<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"><\/span><\/section>\n<section style=\"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=\"100012254\" data-ratio=\"0.42777777777777776\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_FhmUqqgsOhH1bbicbbuoWyLUajluag.png?resize=553%2C237\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAxPqeNQsFjm2HibIuSld9Nh9ArMPAUUsrDMTic4x5ndJRzN6lsFhmUqqgsOhH1bbicbbuoWyLUajluag\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" height=\"237 .07000732421875\" width=\"553 .739990234375\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-size: 15px;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;\"><\/span><\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"ruby\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u7531\u4e8e\u590d\u6742\u7684\u7ec6\u80de-\u7ec6\u80de\u901a\u4fe1\u7f51\u7edc\uff0c\u6211\u4eec\u53ef\u4ee5\u68c0\u67e5\u4ece\u6bcf\u4e2a\u7ec6\u80de\u7fa4\u53d1\u9001\u7684\u4fe1\u53f7\u3002\u8fd9\u91cc\u6211\u4eec\u8fd8\u63a7\u5236\u4e86\u53c2\u6570\uff0c\u4ee5\u4fbf\u6211\u4eec\u53ef\u4ee5\u6bd4\u8f83\u4e0d\u540c\u7f51\u7edc\u4e4b\u95f4\u7684\u8fb9\u6743\u91cd <\/span><\/span><\/code><code><span class=\"code-snippet_outer\">mat <- cellchat@net$weight<\/span><\/code><code><span class=\"code-snippet_outer\">par(mfrow = c(<span class=\"code-snippet__number\">3<\/span>,<span class=\"code-snippet__number\">4<\/span>), xpd=TRUE)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__keyword\">for<\/span> (i <span class=\"code-snippet__keyword\">in<\/span> <span class=\"code-snippet__number\">1<\/span><span class=\"code-snippet__symbol\">:nrow<\/span>(mat)) {<\/span><\/code><code><span class=\"code-snippet_outer\"> mat2 <- matrix(<span class=\"code-snippet__number\">0<\/span>, nrow = nrow(mat), ncol = ncol(mat), dimnames = dimnames(mat))<\/span><\/code><code><span class=\"code-snippet_outer\"> mat2[i, ] <- mat[i, ]<\/span><\/code><code><span class=\"code-snippet_outer\"> netVisual_circle(mat2, vertex.weight = groupSize, weight.scale = T, edge.weight.max = max(mat), title.name = rownames(mat)[i])<\/span><\/code><code><span class=\"code-snippet_outer\">}<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"><\/span><\/section>\n<section style=\"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=\"100012255\" data-ratio=\"0.8185185185185185\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_lZfUjknjU9KLRwwwwk0CIX2icLcIWA.png?resize=391%2C319\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAxPqeNQsFjm2HibIuSld9Nh959IK2n0OibubwIz5vyn3dSmbt9lZfUjknjU9KLRwwwwk0CIX2icLcIWA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" height=\"319 .97998046875\" width=\"391 .07000732421875\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-weight: bold;font-size: 15px;\"># \u7b2c\u4e09\u90e8\u5206:\u7ec6\u80de-\u7ec6\u80de\u901a\u4fe1\u7f51\u7edc\u7684\u53ef\u89c6\u5316<\/span><\/section>\n<section style=\"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<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"apache\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># CellChat\u63d0\u4f9b\u4e86\u51e0\u79cd\u53ef\u89c6\u5316\u7ec6\u80de-\u7ec6\u80de\u901a\u4fe1\u7f51\u7edc\u7684\u65b9\u6cd5\uff0c\u5305\u62ec\u5706\u56fe\u3001\u5f26\u56fe\u3001\u70ed\u56fe\u548c\u6c14\u6ce1\u56fe\u7b49\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u8fd9\u91cc\u6211\u4eec\u4ee5\u4e00\u4e2a\u4fe1\u53f7\u901a\u8defCXCL\u4e3a\u4f8b\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attribute\">pathways<\/span>.show <- c(<span class=\"code-snippet__string\">\"CXCL\"<\/span>) <\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\"># \u5706\u56fe<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attribute\">par<\/span>(mfrow=c(1,1))<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__attribute\">netVisual_aggregate<\/span>(cellchat, signaling = pathways.show, layout = <span class=\"code-snippet__string\">\"circle\"<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"><\/span><\/section>\n<section style=\"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=\"100012252\" data-ratio=\"0.6877133105802048\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_EtqoAAXqaRcyXnu5xW1xJVLmBUQibA.png?resize=253%2C174\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAxPqeNQsFjm2HibIuSld9Nh99xW5wC8Z8Ed1VJWytTdWgOjJcEtqoAAXqaRcyXnu5xW1xJVLmBUQibA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"586\" height=\"174 .60000610351562\" width=\"253 .97000122070312\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"># \u5f26\u56fe<\/span><\/section>\n<section style=\"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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"swift\"><code><span class=\"code-snippet_outer\">par(mfrow=<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">1<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\">netVisual_aggregate(cellchat, signaling = pathways.show, layout = <span class=\"code-snippet__string\">\"chord\"<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"><\/span><\/section>\n<section style=\"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=\"100012257\" data-ratio=\"0.6875852660300137\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/8_IkN3XUSBhssqnWDRdQiawpCopZ9IWA.png?resize=318%2C218\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAxPqeNQsFjm2HibIuSld9Nh9uuiaIleNPdLF1ZNfvOuHIUFx0XIkN3XUSBhssqnWDRdQiawpCopZ9IWA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"733\" height=\"218 .91998291015625\" width=\"318 .4599914550781\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\"># \u70ed\u56fe<\/span><\/section>\n<section style=\"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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"swift\"><code><span class=\"code-snippet_outer\">par(mfrow=<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">1<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\">netVisual_heatmap(cellchat, signaling = pathways.show, color.heatmap = <span class=\"code-snippet__string\">\"Reds\"<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<p><br \/><\/p>\n<section style=\"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=\"100012256\" data-ratio=\"0.6874003189792663\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/9_bCTOOtXtMKb7kzRIjICGicub9YVIQw.png?resize=272%2C187\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/zcicibWZessAxPqeNQsFjm2HibIuSld9Nh9eFv1HhsDB5A2oBtWWKrPL269lbCTOOtXtMKb7kzRIjICGicub9YVIQw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"627\" height=\"187 .510009765625\" width=\"272 .75\" data-recalc-dims=\"1\" \/><\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\">\u8fd8\u6709\u66f4\u591a\u7c7b\u578b\u7684\u53ef\u89c6\u5316\u65b9\u6cd5\uff0c\u53ef\u53c2\u8003\u94fe\u63a5\uff1a<\/span><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\">https:\/\/htmlpreview.github.io\/?https:\/\/github.com\/sqjin\/CellChat\/blob\/master\/tutorial\/CellChat-vignette.html#part-i-data-input-processing-and-initialization-of-cellchat-object<\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\">\u7ed3\u8bed<\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 15px;\">\u901a\u8fc7\u672c\u6559\u7a0b\uff0c\u6211\u4eec\u5b66\u4f1a\u4e86\u4f7f\u7528CellChat\u8fd9\u4e2a\u4ee4\u4eba\u5174\u594b\u7684\u5355\u7ec6\u80de\u5206\u6790\u8f6f\u4ef6\uff0c\u63ed\u793a\u7ec6\u80de\u95f4\u7684\u52a0\u5bc6\u901a\u8bdd\u3002\u6211\u4eec\u901a\u8fc7\u6784\u5efa\u7ec6\u80de\u901a\u8baf\u7f51\u7edc\u3001\u5206\u6790\u7ec6\u80de\u7c7b\u578b\u95f4\u7684\u901a\u8baf\u3001\u53ef\u89c6\u5316\u901a\u8baf\u56fe\u8c31\u4ee5\u53ca\u63a2\u7d22\u901a\u8baf\u6a21\u5757\uff0c\u6df1\u5165\u4e86\u89e3\u4e86\u7ec6\u80de\u95f4\u7684\u4fe1\u606f\u4f20\u9012\u3002\u540c\u65f6\uff0c\u4e5f\u53ef\u4ee5\u4e0e\u5176\u4ed6\u5de5\u5177\u7684\u7ed3\u5408\u4f7f\u7528\uff0c\u62d3\u5c55\u5355\u7ec6\u80de\u6570\u636e\u5206\u6790\u7684\u53ef\u80fd\u6027\u3002<\/span><\/section>\n<section style=\"text-indent: 0em;\"><span style=\"font-family: \u7b49\u7ebf;font-variant: normal;text-transform: none;font-size: 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