{"id":73175,"date":"2026-11-15T14:33:37","date_gmt":"2026-11-15T06:33:37","guid":{"rendered":"https:\/\/www.biocloudservice.com\/wordpress\/?p=73175"},"modified":"2026-11-15T14:35:27","modified_gmt":"2026-11-15T06:35:27","slug":"deseq2-design-contrast-na-independent-filter-cooks-practice","status":"publish","type":"post","link":"https:\/\/www.biocloudservice.com\/wordpress\/deseq2-design-contrast-na-independent-filter-cooks-practice\/","title":{"rendered":"DESeq2 \u5b9e\u8dd1\u590d\u76d8\uff0c\u5148\u628a\u8bbe\u8ba1\u3001\u6bd4\u8f83\u65b9\u5411\u4e0e NA \u89e3\u91ca\u6e05\u695a"},"content":{"rendered":"<div class=\"ysx-method-guide\" style=\"max-width:820px;min-width:0;margin:0 auto;color:#26374a;line-height:1.86;overflow-wrap:anywhere\">\n<p>\u5dee\u5f02\u8868\u8fbe\u5206\u6790\u91cc\uff0c\u6700\u5bb9\u6613\u88ab\u8bef\u7528\u7684\u5f80\u5f80\u4e0d\u662f\u4e00\u6761\u590d\u6742\u547d\u4ee4\uff0c\u800c\u662f\u4e00\u5f20\u770b\u8d77\u6765\u5df2\u7ecf\u5b8c\u6210\u7684\u7ed3\u679c\u8868\u3002\u500d\u6570\u53d8\u5316\u4e3a\u6b63\uff0c\u7a76\u7adf\u4ee3\u8868\u54ea\u7ec4\u66f4\u9ad8\u3002\u6821\u6b63\u540e\u7684\u663e\u8457\u6027\u4e3a\u7a7a\uff0c\u662f\u6ca1\u6709\u8868\u8fbe\u3001\u6ca1\u6709\u5dee\u5f02\uff0c\u8fd8\u662f\u7a0b\u5e8f\u4e3b\u52a8\u6ca1\u6709\u7ed9\u51fa\u5224\u65ad\u3002\u628a\u6279\u6b21\u5199\u8fdb\u8bbe\u8ba1\u516c\u5f0f\u4ee5\u540e\uff0c\u5bfc\u51fa\u7684\u6807\u51c6\u5316\u8ba1\u6570\u662f\u5426\u5df2\u7ecf\u53bb\u6389\u6279\u6b21\u5f71\u54cd\u3002\u8fd9\u4e9b\u95ee\u9898\u82e5\u6ca1\u6709\u89e3\u91ca\u6e05\u695a\uff0c\u540e\u9762\u7684\u706b\u5c71\u56fe\u548c\u5bcc\u96c6\u5206\u6790\u4e5f\u53ef\u80fd\u6cbf\u7740\u9519\u8bef\u65b9\u5411\u7ee7\u7eed\u3002<\/p>\n<p>\u672c\u6b21\u5b9e\u9645\u5b89\u88c5 DESeq2 1.50.2\uff0c\u7528\u56fa\u5b9a\u968f\u673a\u79cd\u5b50\u751f\u6210\u5341\u4e8c\u4e2a\u6a21\u62df\u6837\u672c\uff0c\u5b8c\u6210\u6a21\u578b\u62df\u5408\u4e0e\u591a\u7ec4\u7ed3\u679c\u5bf9\u7167\u3002\u6587\u7ae0\u76f4\u63a5\u4f7f\u7528\u5b9e\u8dd1\u8f93\u51fa\u8bf4\u660e\u8bbe\u8ba1\u9519\u8bef\u3001\u6bd4\u8f83\u65b9\u5411\u3001\u5f02\u5e38\u8ba1\u6570\u548c\u72ec\u7acb\u8fc7\u6ee4\u3002\u6570\u636e\u5b8c\u5168\u7531\u811a\u672c\u751f\u6210\uff0c\u4e0d\u4ee3\u8868\u67d0\u79cd\u75be\u75c5\u6216\u5904\u7406\u7684\u771f\u5b9e\u53d8\u5316\uff0c\u4e5f\u4e0d\u662f\u65b9\u6cd5\u51c6\u786e\u7387\u6d4b\u8bc4\u3002<\/p>\n<figure class=\"guide-figure\" style=\"margin:24px 0 28px\"><img loading=\"lazy\" decoding=\"async\" src=\"\/wordpress\/wp-content\/uploads\/2026\/11\/deseq2-design-contrast-na-independent-filter-cooks-practice-guide.png\" alt=\"NA \u4e0d\u53ea\u6709\u4e00\u79cd\u539f\u56e0\u30023,002 \u884c \u00d7 12 \u4e2a\u6a21\u62df\u6837\u672c \u00b7 \u5b9e\u9645\u62df\u5408\u4e0e\u5bf9\u7167\u3002\u5168\u96f6\u884c\uff0c\u5e73\u5747\u8ba1\u6570\u4e3a\u96f6\uff0c\u6548\u5e94\u4f30\u8ba1\u3001P \u503c\u548c\u6821\u6b63\u503c\u5747\u7f3a\u5931\u3002\u5f02\u5e38\u8ba1\u6570\uff0c\u5355\u6837\u672c\u8ba1\u6570\u88ab\u8bbe\u4e3a\u5341\u4e07\uff0c\u5173\u95ed\u8bca\u65ad\u540e\u8fdb\u5165\u95e8\u69db\uff0c\u4e0d\u4ee3\u8868\u5e94\u5173\u95ed\u3002\u72ec\u7acb\u8fc7\u6ee4\uff0c243 \u884c\u6709 P \u503c\u4f46\u65e0\u6821\u6b63\u503c\uff0c\u4e0e\u5168\u96f6\u548c\u5f02\u5e38\u8ba1\u6570\u5206\u522b\u89e3\u91ca\u3002\" width=\"1200\" height=\"840\" style=\"display:block;width:100%;height:auto;border-radius:10px\"><figcaption style=\"font-size:14px;line-height:1.6;margin:9px 2px 0;color:#475569\">3,002 \u884c \u00d7 12 \u4e2a\u6a21\u62df\u6837\u672c \u00b7 \u5b9e\u9645\u62df\u5408\u4e0e\u5bf9\u7167<\/figcaption><\/figure>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u4ece\u6837\u672c\u8868\u5f00\u59cb\uff0c\u800c\u4e0d\u662f\u4ece\u5dee\u5f02\u57fa\u56e0\u5217\u8868\u5f00\u59cb<\/h2>\n<p>\u5b9e\u9a8c\u5305\u542b\u4e24\u4e2a\u6279\u6b21\uff0c\u6bcf\u4e2a\u6279\u6b21\u5404\u6709\u4e09\u4e2a\u5bf9\u7167\u548c\u4e09\u4e2a\u5904\u7406\u6837\u672c\u3002\u56e0\u6b64\u4e24\u4e2a\u56e0\u7d20\u5f7c\u6b64\u4ea4\u53c9\uff0c\u65e2\u80fd\u5728\u540c\u6279\u6b21\u5185\u6bd4\u8f83\u5904\u7406\u4e0e\u5bf9\u7167\uff0c\u4e5f\u80fd\u533a\u5206\u6279\u6b21\u4e4b\u95f4\u7684\u6574\u4f53\u53d8\u5316\u3002\u62df\u5408\u91c7\u7528\u6279\u6b21\u52a0\u5904\u7406\u6761\u4ef6\u7684\u8bbe\u8ba1\uff0c\u6bd4\u8f83\u76ee\u6807\u59cb\u7ec8\u662f\u63a7\u5236\u6279\u6b21\u540e\u7684\u5904\u7406\u6548\u5e94\u3002<\/p>\n<div class=\"guide-table\" style=\"max-width:100%;overflow-x:auto;margin:18px 0\">\n<table style=\"display:table;width:100%;max-width:100%;min-width:0;table-layout:fixed;border-collapse:collapse;font-size:.92em;line-height:1.6\">\n<thead>\n<tr>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#fff7e9;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u6279\u6b21<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#fff7e9;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u5bf9\u7167\u6837\u672c\u6570<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#fff7e9;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u5904\u7406\u6837\u672c\u6570<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#fff7e9;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u672c\u6b21\u4f5c\u7528<\/th>\n<\/tr>\n<\/thead>\n<tbody>\n<tr>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u7b2c\u4e00\u6279<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">3<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">3<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u63d0\u4f9b\u6279\u6b21\u5185\u6bd4\u8f83<\/td>\n<\/tr>\n<tr>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u7b2c\u4e8c\u6279<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">3<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">3<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u63d0\u4f9b\u53e6\u4e00\u7ec4\u6279\u6b21\u5185\u6bd4\u8f83<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n<p>\u6a21\u62df\u77e9\u9635\u5171\u6709\u4e09\u5343\u96f6\u4e8c\u884c\u3002\u5176\u4e2d\u4e24\u5343\u884c\u6309\u8d1f\u4e8c\u9879\u5206\u5e03\u751f\u6210\uff0c\u90e8\u5206\u884c\u52a0\u5165\u5904\u7406\u6548\u5e94\uff0c\u53e6\u4e00\u4e9b\u884c\u52a0\u5165\u6279\u6b21\u6548\u5e94\u3002\u540c\u65f6\u52a0\u5165\u4e00\u6761\u5168\u96f6\u884c\u3001\u4e00\u6761\u5355\u4e2a\u6837\u672c\u6781\u7aef\u504f\u9ad8\u7684\u884c\uff0c\u4ee5\u53ca\u4e00\u5343\u6761\u53ea\u6709\u4e00\u6b21\u8ba1\u6570\u7684\u7a00\u758f\u884c\u3002\u5b83\u4eec\u5206\u522b\u7528\u6765\u68c0\u9a8c\u4e0d\u540c\u7ed3\u679c\u72b6\u6001\uff0c\u800c\u4e0d\u662f\u51d1\u6210\u4e00\u5f20\u53ea\u4f1a\u4ea7\u751f\u6f02\u4eae\u663e\u8457\u7ed3\u679c\u7684\u8f93\u5165\u8868\u3002<\/p>\n<p>\u5206\u6790\u8bbe\u8ba1\u8981\u5148\u4e8e\u770b\u7ed3\u679c\u786e\u5b9a\u3002\u5b9e\u9645\u9879\u76ee\u91cc\u7684\u6279\u6b21\u3001\u4f9b\u4f53\u3001\u5904\u7406\u65f6\u95f4\u548c\u914d\u5bf9\u5173\u7cfb\uff0c\u5e94\u6765\u81ea\u6837\u672c\u91c7\u96c6\u4e0e\u5b9e\u9a8c\u8bb0\u5f55\uff0c\u4e0d\u80fd\u4e3a\u4e86\u8ba9\u67d0\u4e2a\u5019\u9009\u663e\u8457\u800c\u4e8b\u540e\u66f4\u6539\u3002\u6a21\u578b\u53ea\u80fd\u5229\u7528\u5df2\u7ecf\u5b58\u5728\u7684\u6bd4\u8f83\u4fe1\u606f\uff0c\u65e0\u6cd5\u66ff\u4ee3\u7f3a\u5931\u7684\u5b9e\u9a8c\u8bbe\u8ba1\u3002\u65b9\u6cd5\u7684\u8ba1\u6570\u5efa\u6a21\u80cc\u666f\u53ef\u53c2\u9605 <a style=\"color:#b06418;text-decoration:underline;text-underline-offset:2px\" href=\"https:\/\/link.springer.com\/article\/10.1186\/s13059-014-0550-8\">DESeq2 \u539f\u59cb\u8bba\u6587<\/a>\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u4e09\u79cd\u8f93\u5165\u9519\u8bef\uff0c\u6211\u4eec\u90fd\u5b9e\u9645\u89e6\u53d1\u4e86\u4e00\u6b21<\/h2>\n<p>\u7b2c\u4e00\u79cd\u662f\u7ed9\u6240\u6709\u8ba1\u6570\u52a0\u4e0a\u96f6\u70b9\u4e8c\u4e94\uff0c\u518d\u5c1d\u8bd5\u4ece\u77e9\u9635\u521b\u5efa\u5206\u6790\u5bf9\u8c61\u3002\u7a0b\u5e8f\u660e\u786e\u62a5\u51fa\u8f93\u5165\u542b\u6709\u975e\u6574\u6570\u503c\u3002\u672c\u7ec3\u4e60\u8d70\u7684\u662f\u76f4\u63a5\u8ba1\u6570\u77e9\u9635\u5165\u53e3\uff0c\u56e0\u6b64\u4fdd\u6301\u672a\u7ecf\u6807\u51c6\u5316\u7684\u6574\u6570\u8ba1\u6570\u3002\u82e5\u4f7f\u7528\u8f6c\u5f55\u672c\u5b9a\u91cf\u7ed3\u679c\uff0c\u5e94\u4f7f\u7528\u4e0e\u8be5\u6765\u6e90\u5339\u914d\u7684\u5bfc\u5165\u65b9\u5f0f\uff0c\u4e0d\u80fd\u5148\u628a\u4efb\u610f\u8fde\u7eed\u6570\u503c\u56db\u820d\u4e94\u5165\uff0c\u518d\u5047\u88c5\u5b83\u4eec\u90fd\u662f\u540c\u4e00\u79cd\u539f\u59cb\u8ba1\u6570\u3002<\/p>\n<p>\u7b2c\u4e8c\u79cd\u662f\u628a\u8ba1\u6570\u77e9\u9635\u7684\u6837\u672c\u5217\u5012\u5e8f\uff0c\u6837\u672c\u4fe1\u606f\u8868\u5374\u4e0d\u8c03\u6574\u3002\u7a0b\u5e8f\u6307\u51fa\u4e24\u8fb9\u7684\u6837\u672c\u540d\u79f0\u987a\u5e8f\u4e0d\u4e00\u81f4\u3002\u8fd9\u4e2a\u5931\u8d25\u975e\u5e38\u6709\u4ef7\u503c\uff0c\u56e0\u4e3a\u540c\u6837\u5341\u4e8c\u5217\u3001\u540c\u6837\u5341\u4e8c\u4e2a\u540d\u5b57\uff0c\u5e76\u4e0d\u610f\u5473\u7740\u6bcf\u4e00\u5217\u90fd\u5bf9\u5e94\u4e86\u6b63\u786e\u7684\u5206\u7ec4\u3002\u53ea\u68c0\u67e5\u96c6\u5408\u76f8\u7b49\u4e0d\u591f\uff0c\u5fc5\u987b\u68c0\u67e5\u987a\u5e8f\u4e00\u4e00\u5bf9\u5e94\uff0c\u4e14\u540d\u79f0\u6ca1\u6709\u91cd\u590d\u3002<\/p>\n<p>\u7b2c\u4e09\u79cd\u662f\u4eba\u4e3a\u628a\u7b2c\u4e00\u6279\u5168\u90e8\u6807\u6210\u5bf9\u7167\u3001\u7b2c\u4e8c\u6279\u5168\u90e8\u6807\u6210\u5904\u7406\uff0c\u540c\u65f6\u4fdd\u7559\u4e24\u4e2a\u56e0\u7d20\u7684\u8bbe\u8ba1\u3002\u7a0b\u5e8f\u62a5\u544a\u8bbe\u8ba1\u77e9\u9635\u4e0d\u6ee1\u79e9\u3002\u8fd9\u91cc\u5904\u7406\u4e0e\u6279\u6b21\u8868\u8fbe\u4e86\u540c\u4e00\u4ef6\u4e8b\uff0c\u65e0\u6cd5\u4ece\u8fd9\u4e9b\u6837\u672c\u4e2d\u533a\u5206\u662f\u54ea\u4e00\u4e2a\u56e0\u7d20\u5bfc\u81f4\u5dee\u5f02\u3002\u5220\u6389\u6279\u6b21\u9879\u53ef\u80fd\u8ba9\u547d\u4ee4\u8fd0\u884c\uff0c\u4f46\u4e0d\u4f1a\u51ed\u7a7a\u83b7\u5f97\u539f\u672c\u7f3a\u5931\u7684\u8bc6\u522b\u80fd\u529b\u3002<\/p>\n<p>\u8fd9\u4e09\u6b21\u5931\u8d25\u90fd\u5728\u7ed3\u679c\u8bb0\u5f55\u4e2d\u4fdd\u7559\u4e86\u539f\u59cb\u62a5\u9519\u3002\u5b83\u4eec\u4e0d\u662f\u8ba9\u8bfb\u8005\u6a21\u4eff\u7684\u6b63\u5f0f\u8f93\u5165\uff0c\u800c\u662f\u7528\u4e8e\u9a8c\u8bc1\u5165\u53e3\u68c0\u67e5\u3002\u5904\u7406\u81ea\u5df1\u7684\u6570\u636e\u65f6\uff0c\u5e94\u5148\u89e3\u51b3\u8fd9\u4e9b\u7ed3\u6784\u95ee\u9898\uff0c\u518d\u8003\u8651\u8c03\u53c2\u3002\u7279\u522b\u662f\u8bbe\u8ba1\u4e0d\u6ee1\u79e9\uff0c\u4e0d\u5e94\u7b80\u5355\u7406\u89e3\u4e3a\u8f6f\u4ef6\u6545\u969c\uff0c\u4e5f\u4e0d\u5e94\u9760\u66f4\u6362\u4e00\u5957\u7edf\u8ba1\u8f6f\u4ef6\u6765\u7ed5\u8fc7\u3002<\/p>\n<pre style=\"max-width:100%;box-sizing:border-box;overflow-x:auto;margin:18px 0;padding:14px 16px;background:#f3f6fa;color:#1a293c;border:1px solid #d8e1ea;border-radius:8px;line-height:1.55;white-space:pre;overflow-wrap:normal;word-break:normal\"><code class=\"language-r\">stopifnot(identical(colnames(cts), rownames(samples)))\r\n\r\ndds &lt;- DESeqDataSetFromMatrix(\r\n  countData = cts,\r\n  colData = samples,\r\n  design = ~ batch + condition\r\n)\r\ndds &lt;- DESeq(dds)\r\n<\/code><\/pre>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u6807\u51c6\u5316\u8ba1\u6570\u6ca1\u6709\u81ea\u52a8\u6d88\u9664\u6279\u6b21<\/h2>\n<p>\u672c\u6b21\u62df\u5408\u5f97\u5230\u5341\u4e8c\u4e2a\u6587\u5e93\u5927\u5c0f\u56e0\u5b50\uff0c\u8303\u56f4\u7ea6\u4e3a\u96f6\u70b9\u4e03\u4e09\u5230\u4e00\u70b9\u4e09\u4e8c\u3002\u8fd9\u4e9b\u56e0\u5b50\u7528\u4e8e\u8ba1\u6570\u5c3a\u5ea6\u8c03\u6574\uff0c\u4e0e\u751f\u6210\u6570\u636e\u65f6\u4eba\u4e3a\u8bbe\u5b9a\u7684\u500d\u6570\u4e0d\u8981\u6c42\u5b8c\u5168\u76f8\u540c\u3002\u4f30\u8ba1\u4f9d\u8d56\u6574\u5f20\u77e9\u9635\u7684\u7ec4\u6210\u53ca\u65b9\u6cd5\u89c4\u5219\uff0c\u4e0d\u5e94\u6839\u636e\u5b83\u662f\u5426\u7b49\u4e8e\u4e00\u4e2a\u9884\u60f3\u503c\uff0c\u5c31\u76f4\u63a5\u5224\u65ad\u6807\u51c6\u5316\u6b63\u786e\u6216\u9519\u8bef\u3002<\/p>\n<p>\u6211\u4eec\u53e6\u5916\u5bfc\u51fa\u4e86\u6807\u51c6\u5316\u8ba1\u6570\uff0c\u68c0\u67e5\u4e13\u95e8\u52a0\u5165\u6279\u6b21\u6548\u5e94\u7684\u4e00\u884c\u3002\u7f16\u53f7\u4e3a <code>G0201<\/code> \u7684\u7279\u5f81\uff0c\u5728\u7b2c\u4e00\u6279\u7684\u6807\u51c6\u5316\u8ba1\u6570\u5747\u503c\u7ea6\u4e3a\u4e8c\u767e\u516b\u5341\u4e03\u70b9\u56db\u4e5d\uff0c\u7b2c\u4e8c\u6279\u7ea6\u4e3a\u4e00\u5343\u96f6\u56db\u5341\u4e94\u70b9\u4e94\u516b\u3002\u867d\u7136\u62df\u5408\u8bbe\u8ba1\u5df2\u7ecf\u5305\u542b\u6279\u6b21\uff0c\u5bfc\u51fa\u7684\u8fd9\u5f20\u8ba1\u6570\u8868\u4ecd\u660e\u663e\u4fdd\u7559\u6279\u6b21\u5dee\u5f02\u3002<\/p>\n<p>\u8fd9\u8bf4\u660e\u5728\u6a21\u578b\u4e2d\u63a7\u5236\u6279\u6b21\uff0c\u4e0e\u628a\u5c55\u793a\u7528\u77e9\u9635\u4e2d\u7684\u6279\u6b21\u6210\u5206\u6d88\u53bb\uff0c\u662f\u4e24\u4ef6\u4e0d\u540c\u7684\u4e8b\u3002\u524d\u8005\u6539\u53d8\u6548\u5e94\u4f30\u8ba1\u7684\u6761\u4ef6\uff0c\u540e\u8005\u5c5e\u4e8e\u53e6\u5916\u7684\u6570\u636e\u5904\u7406\u76ee\u6807\u3002\u672c\u6b21\u6ca1\u6709\u6267\u884c\u6279\u6b21\u6821\u6b63\u540e\u7684\u53ef\u89c6\u5316\u53d8\u6362\uff0c\u4e5f\u6ca1\u6709\u628a\u6807\u51c6\u5316\u8ba1\u6570\u79f0\u4e3a\u53bb\u6279\u6b21\u77e9\u9635\u3002\u8bfb\u8005\u505a\u70ed\u56fe\u6216\u4e3b\u6210\u5206\u56fe\u65f6\uff0c\u5e94\u660e\u786e\u5e0c\u671b\u5c55\u793a\u539f\u59cb\u5dee\u5f02\uff0c\u8fd8\u662f\u67d0\u79cd\u8c03\u6574\u540e\u7684\u7ed3\u6784\u3002<\/p>\n<p>\u540c\u6837\uff0c\u4e0d\u5b9c\u628a\u5df2\u7ecf\u5904\u7406\u8fc7\u7684\u6807\u51c6\u5316\u8ba1\u6570\u91cd\u65b0\u8f93\u5165\u8ba1\u6570\u6a21\u578b\uff0c\u518d\u671f\u5f85\u7a0b\u5e8f\u7b2c\u4e8c\u6b21\u8c03\u6574\u5f97\u66f4\u51c6\u786e\u3002\u6bcf\u4e00\u6b65\u8f93\u5165\u90fd\u5e94\u7b26\u5408\u5bf9\u5e94\u65b9\u6cd5\u7684\u5047\u8bbe\u3002\u8ba1\u6570\u6765\u6e90\u548c\u8f6c\u6362\u8fc7\u7a0b\u5e94\u4fdd\u5b58\u5728\u5206\u6790\u8bb0\u5f55\u4e2d\uff0c\u8ba9\u63a5\u624b\u7684\u4eba\u80fd\u591f\u77e5\u9053\u4e00\u5f20\u77e9\u9635\u5230\u5e95\u7ecf\u5386\u4e86\u54ea\u4e9b\u5904\u7406\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u6bd4\u8f83\u65b9\u5411\u5fc5\u987b\u5199\u5728\u4ee3\u7801\u91cc<\/h2>\n<p>\u672c\u6b21\u663e\u5f0f\u6307\u5b9a\u5904\u7406\u76f8\u5bf9\u5bf9\u7167\uff0c\u800c\u4e0d\u662f\u4f9d\u8d56\u9ed8\u8ba4\u9009\u62e9\u3002\u968f\u540e\u5728\u540c\u4e00\u4e2a\u5df2\u62df\u5408\u5bf9\u8c61\u4e0a\u53cd\u8f6c\u6bd4\u8f83\uff0c\u5f97\u5230\u5bf9\u7167\u76f8\u5bf9\u5904\u7406\u3002\u4e24\u4e2a\u7ed3\u679c\u8868\u9010\u884c\u6838\u5bf9\uff0c\u6240\u6709\u53ef\u7528\u6548\u5e94\u4f30\u8ba1\u76f8\u52a0\u540e\u7684\u6700\u5927\u7edd\u5bf9\u8bef\u5dee\u4e3a\u96f6\uff0c\u4e24\u6b21\u53ef\u7528\u539f\u59cb P \u503c\u7684\u6700\u5927\u5dee\u4e5f\u4e3a\u96f6\u3002<\/p>\n<div class=\"guide-table\" style=\"max-width:100%;overflow-x:auto;margin:18px 0\">\n<table style=\"display:table;width:100%;max-width:100%;min-width:0;table-layout:fixed;border-collapse:collapse;font-size:.92em;line-height:1.6\">\n<thead>\n<tr>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#fff7e9;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u7279\u5f81<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#fff7e9;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u5904\u7406\u76f8\u5bf9\u5bf9\u7167<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#fff7e9;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u5bf9\u7167\u76f8\u5bf9\u5904\u7406<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#fff7e9;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u539f\u59cb P \u503c<\/th>\n<\/tr>\n<\/thead>\n<tbody>\n<tr>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\"><code style=\"white-space:normal;overflow-wrap:anywhere;word-break:break-word;font-size:.88em\">G0001<\/code><\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1.714<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u22121.714<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">2.5e-21<\/td>\n<\/tr>\n<tr>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\"><code style=\"white-space:normal;overflow-wrap:anywhere;word-break:break-word;font-size:.88em\">G0081<\/code><\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u22122.046<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">2.046<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">5.7e-14<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n<p>\u8868\u4e2d\u7684\u6548\u5e94\u662f\u4ee5\u4e8c\u4e3a\u5e95\u7684\u5bf9\u6570\u500d\u6570\u53d8\u5316\uff0c\u8868\u5185\u6570\u503c\u4f5c\u4e86\u9002\u5f53\u820d\u5165\u3002\u7b2c\u4e00\u884c\u6b63\u503c\u610f\u5473\u7740\u5728\u672c\u6b21\u660e\u786e\u6307\u5b9a\u7684\u6bd4\u8f83\u4e2d\u5904\u7406\u7ec4\u66f4\u9ad8\uff0c\u53cd\u5411\u6bd4\u8f83\u81ea\u7136\u53d8\u6210\u8d1f\u503c\u3002\u4e0d\u80fd\u8131\u79bb\u6bd4\u8f83\u5b9a\u4e49\uff0c\u5355\u51ed\u6b63\u8d1f\u53f7\u5199\u4e0a\u8c03\u6216\u4e0b\u8c03\u3002\u66f4\u7a33\u59a5\u7684\u4ea4\u4ed8\u65b9\u5f0f\u662f\u5728\u5217\u540d\u3001\u56fe\u6ce8\u548c\u7ed3\u679c\u6587\u4ef6\u8bf4\u660e\u4e2d\u540c\u65f6\u5199\u51fa\u6bd4\u8f83\u65b9\u5411\u3002<\/p>\n<p>\u4e5f\u4e0d\u8981\u628a\u53cd\u8f6c\u6bd4\u8f83\u770b\u6210\u65b0\u7684\u72ec\u7acb\u9a8c\u8bc1\u3002\u4e24\u6b21\u7ed3\u679c\u4f7f\u7528\u540c\u4e00\u7ec4\u6837\u672c\u548c\u540c\u4e00\u4e2a\u62df\u5408\u5bf9\u8c61\uff0c\u65b9\u5411\u53d8\u5316\u53ea\u662f\u5728\u91cd\u65b0\u8868\u8fbe\u540c\u4e00\u4e2a\u5bf9\u6bd4\u3002\u672c\u5b9e\u9a8c\u9a8c\u8bc1\u7684\u662f\u4ee3\u7801\u4e0e\u89e3\u91ca\u4e00\u81f4\uff0c\u4e0d\u80fd\u636e\u6b64\u8bf4\u540c\u4e00\u4e2a\u53d1\u73b0\u5f97\u5230\u4e86\u4e24\u6b21\u5b9e\u9a8c\u652f\u6301\u3002<\/p>\n<pre style=\"max-width:100%;box-sizing:border-box;overflow-x:auto;margin:18px 0;padding:14px 16px;background:#f3f6fa;color:#1a293c;border:1px solid #d8e1ea;border-radius:8px;line-height:1.55;white-space:pre;overflow-wrap:normal;word-break:normal\"><code class=\"language-r\">forward &lt;- results(\r\n  dds, contrast = c(&quot;condition&quot;, &quot;treated&quot;, &quot;control&quot;), alpha = 0.05\r\n)\r\nreverse &lt;- results(\r\n  dds, contrast = c(&quot;condition&quot;, &quot;control&quot;, &quot;treated&quot;), alpha = 0.05\r\n)\r\n<\/code><\/pre>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u7b2c\u4e00\u7c7b NA \u6765\u81ea\u5168\u96f6\u884c<\/h2>\n<p>\u4eba\u4e3a\u52a0\u5165\u7684\u5168\u96f6\u884c\u5728\u5341\u4e8c\u4e2a\u6837\u672c\u4e2d\u90fd\u6ca1\u6709\u8ba1\u6570\u3002\u8f93\u51fa\u7684\u5e73\u5747\u6807\u51c6\u5316\u8ba1\u6570\u4e3a\u96f6\uff0c\u6548\u5e94\u4f30\u8ba1\u3001\u539f\u59cb P \u503c\u548c\u6821\u6b63\u503c\u5747\u4e3a\u7a7a\u3002\u8fd9\u91cc\u6ca1\u6709\u8db3\u591f\u7684\u89c2\u6d4b\u4fe1\u606f\u652f\u6301\u8be5\u884c\u7684\u6bd4\u8f83\uff0c\u4e0d\u80fd\u628a\u7a7a\u503c\u66ff\u6362\u6210\u96f6\uff0c\u518d\u628a\u5b83\u7406\u89e3\u4e3a\u6700\u663e\u8457\u7684\u4e00\u884c\u3002<\/p>\n<p>\u4e5f\u4e0d\u5e94\u628a\u7f3a\u5931\u6821\u6b63\u503c\u7edf\u4e00\u66ff\u6362\u4e3a\u4e00\uff0c\u968f\u540e\u5728\u62a5\u544a\u4e2d\u8bf4\u6240\u6709\u8fd9\u4e9b\u884c\u90fd\u8bc1\u5b9e\u6ca1\u6709\u5dee\u5f02\u3002\u5c06\u7f3a\u5931\u503c\u8bbe\u4e3a\u4e00\u6709\u65f6\u662f\u4f5c\u56fe\u7a0b\u5e8f\u7684\u663e\u793a\u5904\u7406\uff0c\u4f46\u90a3\u5c5e\u4e8e\u5c55\u793a\u7ea6\u5b9a\uff0c\u9700\u8981\u8bf4\u660e\uff0c\u4e0d\u80fd\u6539\u53d8\u539f\u6765\u7684\u7edf\u8ba1\u72b6\u6001\u3002\u4fdd\u5b58\u539f\u59cb\u7ed3\u679c\u8868\uff0c\u6bd4\u5728\u5bfc\u51fa\u65f6\u4e00\u6b21\u6027\u586b\u6ee1\u6240\u6709\u7a7a\u683c\u66f4\u53ef\u9760\u3002<\/p>\n<p>\u66f4\u5b9e\u7528\u7684\u505a\u6cd5\u662f\u4e3a\u7f3a\u5931\u7ed3\u679c\u4fdd\u7559\u539f\u56e0\u5206\u7c7b\u3002\u4f8b\u5982\u5148\u68c0\u67e5\u6574\u884c\u662f\u5426\u5168\u96f6\uff0c\u518d\u68c0\u67e5\u539f\u59cb P \u503c\u662f\u5426\u7f3a\u5931\uff0c\u6700\u540e\u68c0\u67e5\u662f\u5426\u4ec5\u6821\u6b63\u503c\u7f3a\u5931\u3002\u5206\u7c7b\u8fc7\u7a0b\u80fd\u544a\u8bc9\u8bfb\u8005\u5f53\u524d\u7f3a\u7684\u662f\u89c2\u6d4b\u3001\u53ef\u63a5\u53d7\u7684\u68c0\u9a8c\u7ed3\u679c\uff0c\u8fd8\u662f\u8fdb\u5165\u591a\u91cd\u6bd4\u8f83\u6821\u6b63\u7684\u8d44\u683c\uff0c\u800c\u4e0d\u662f\u53ea\u7ed9\u51fa\u4e00\u4e2a\u7b3c\u7edf\u7684\u4e0d\u53ef\u7528\u6807\u7b7e\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u7b2c\u4e8c\u7c7b NA \u4e0e\u5f02\u5e38\u8ba1\u6570\u6709\u5173<\/h2>\n<p>\u5f02\u5e38\u884c\u7684\u524d\u5341\u4e00\u4e2a\u6837\u672c\u8ba1\u6570\u5747\u4e3a\u4e09\u5341\uff0c\u6700\u540e\u4e00\u4e2a\u6837\u672c\u88ab\u4eba\u4e3a\u8bbe\u4e3a\u5341\u4e07\u3002\u9ed8\u8ba4\u7ed3\u679c\u7ed9\u51fa\u4e86\u7ea6\u56db\u70b9\u516b\u96f6\u4e8c\u7684\u5bf9\u6570\u500d\u6570\u53d8\u5316\uff0c\u4f46\u539f\u59cb P \u503c\u4e0e\u6821\u6b63\u503c\u4e3a\u7a7a\u3002\u8fd9\u6b63\u8bf4\u660e\u4e0d\u80fd\u53ea\u6839\u636e\u6548\u5e94\u5f88\u5927\uff0c\u5c31\u628a\u8be5\u884c\u6392\u5728\u7ed3\u679c\u524d\u5217\u3002<\/p>\n<p>\u6211\u4eec\u5728\u540c\u4e00\u62df\u5408\u5bf9\u8c61\u4e0a\u5173\u95ed\u7ed3\u679c\u63d0\u53d6\u9636\u6bb5\u7684 Cook \u8ddd\u79bb\u7b5b\u67e5\uff0c\u539f\u59cb P \u503c\u53d8\u4e3a\u7ea6\u96f6\u70b9\u96f6\u96f6\u4e8c\u516d\u4e8c\u516d\uff0c\u6821\u6b63\u503c\u7ea6\u96f6\u70b9\u96f6\u56db\u4e09\u4e09\u4e03\uff0c\u521a\u597d\u8fdb\u5165\u5e38\u89c1\u7684\u96f6\u70b9\u96f6\u4e94\u95e8\u69db\u3002\u8fd9\u4e2a\u5bf9\u7167\u4e0d\u662f\u63a8\u8350\u5173\u95ed\u7b5b\u67e5\uff0c\u800c\u662f\u5c55\u793a\u4e00\u4e2a\u5f02\u5e38\u6837\u672c\u5982\u4f55\u5f71\u54cd\u4f60\u6700\u7ec8\u5f97\u5230\u7684\u5019\u9009\u540d\u5355\u3002<\/p>\n<p>\u9762\u5bf9\u7c7b\u4f3c\u60c5\u51b5\uff0c\u5e94\u5148\u67e5\u770b\u5404\u6837\u672c\u8ba1\u6570\u3001\u6837\u672c\u8d28\u91cf\u548c\u5b9e\u9a8c\u8bb0\u5f55\uff0c\u7406\u89e3\u5f02\u5e38\u6765\u81ea\u771f\u5b9e\u5f02\u8d28\u6027\u8fd8\u662f\u6280\u672f\u95ee\u9898\u3002\u672a\u7ecf\u8c03\u67e5\u5c31\u4fdd\u7559\u6216\u5220\u9664\u67d0\u4e2a\u6837\u672c\uff0c\u90fd\u53ef\u80fd\u6539\u53d8\u95ee\u9898\u672c\u8eab\u3002\u5f02\u5e38\u503c\u5904\u7406\u8fd8\u4e0e\u91cd\u590d\u7ed3\u6784\u548c\u65b9\u6cd5\u8bbe\u7f6e\u6709\u5173\uff0c\u672c\u6b21\u89c2\u5bdf\u4e0d\u80fd\u63a8\u5e7f\u6210\u4efb\u610f\u91cd\u590d\u6570\u4e0b\u90fd\u4f1a\u4ea7\u751f\u540c\u6837\u7684\u7a7a\u503c\u884c\u4e3a\u3002<\/p>\n<p>\u56e0\u6b64\uff0c\u62a5\u544a\u91cc\u5e94\u540c\u65f6\u4fdd\u7559\u5f02\u5e38\u884c\u7684\u8ba1\u6570\u5206\u5e03\u548c\u8bca\u65ad\u72b6\u6001\u3002\u8bfb\u8005\u770b\u5230\u5f88\u5927\u7684\u6548\u5e94\u4f46\u6ca1\u6709\u663e\u8457\u6027\u65f6\uff0c\u9996\u5148\u9700\u8981\u7406\u89e3\u4e3a\u4ec0\u4e48\u6ca1\u6709\u7ed9\u51fa\u68c0\u9a8c\u7ed3\u8bba\uff0c\u800c\u4e0d\u662f\u5c06\u5176\u89c6\u4f5c\u7a0b\u5e8f\u6f0f\u7b97\u3002\u6211\u4eec\u6ca1\u6709\u5728\u672c\u5b9e\u9a8c\u4e2d\u6267\u884c\u6837\u672c\u5254\u9664\u6216\u91cd\u65b0\u6d4b\u5e8f\uff0c\u4e5f\u4e0d\u628a\u4e00\u6b21\u53c2\u6570\u5207\u6362\u5f53\u6210\u5f02\u5e38\u95ee\u9898\u5df2\u7ecf\u89e3\u51b3\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u7b2c\u4e09\u7c7b NA \u53ea\u51fa\u73b0\u5728\u6821\u6b63\u5217<\/h2>\n<p>\u9ed8\u8ba4\u7ed3\u679c\u4e2d\uff0c\u539f\u59cb P \u503c\u7f3a\u5931\u7684\u884c\u5171\u6709\u4e24\u6761\uff0c\u6821\u6b63\u503c\u7f3a\u5931\u7684\u884c\u5171\u6709\u4e8c\u767e\u56db\u5341\u4e94\u6761\u3002\u4e24\u8005\u76f8\u5dee\u7684\u4e8c\u767e\u56db\u5341\u4e09\u6761\uff0c\u6709\u539f\u59cb P \u503c\uff0c\u4f46\u56e0\u72ec\u7acb\u8fc7\u6ee4\u6ca1\u6709\u5f97\u5230\u6821\u6b63\u503c\u3002\u8fd9\u4e2a\u6570\u5b57\u6765\u81ea\u672c\u6b21\u5b9e\u9645\u8fd0\u884c\uff0c\u4e0d\u80fd\u4f5c\u4e3a\u5176\u4ed6\u6570\u636e\u96c6\u7684\u9884\u671f\u6bd4\u4f8b\u3002<\/p>\n<p>\u5176\u4e2d <code>LOW0007<\/code> \u7684\u5e73\u5747\u6807\u51c6\u5316\u8ba1\u6570\u7ea6\u4e3a\u96f6\u70b9\u96f6\u4e03\u96f6\u4e8c\uff0c\u539f\u59cb P \u503c\u7ea6\u96f6\u70b9\u516b\u4e5d\u4e09\u4e03\uff0c\u6821\u6b63\u503c\u4e3a\u7a7a\u3002\u5173\u95ed\u72ec\u7acb\u8fc7\u6ee4\u540e\uff0c\u540c\u4e00\u884c\u7684\u539f\u59cb\u503c\u4e0d\u53d8\uff0c\u6821\u6b63\u503c\u53d8\u4e3a\u7ea6\u96f6\u70b9\u4e5d\u4e94\u516b\u3002\u4e0e\u6b64\u540c\u65f6\uff0c\u5168\u96f6\u884c\u548c\u5f02\u5e38\u884c\u7684\u7f3a\u5931\u5e76\u6ca1\u6709\u56e0\u6b64\u6d88\u5931\uff0c\u8bc1\u660e\u8fd9\u4e9b\u7a7a\u503c\u5e76\u4e0d\u662f\u540c\u4e00\u4e2a\u5f00\u5173\u9020\u6210\u7684\u3002<\/p>\n<p>\u672c\u5b9e\u9a8c\u7684\u4e00\u5343\u6761\u7a00\u758f\u884c\u5e76\u975e\u5168\u90e8\u88ab\u8fc7\u6ee4\u3002\u5b83\u4eec\u867d\u7136\u90fd\u53ea\u6709\u4e00\u6b21\u8ba1\u6570\uff0c\u4f46\u8ba1\u6570\u843d\u5728\u54ea\u4e2a\u6837\u672c\uff0c\u4f1a\u5f71\u54cd\u6807\u51c6\u5316\u540e\u7684\u5e73\u5747\u6c34\u5e73\u3002\u628a\u8fc7\u6ee4\u89c4\u5219\u7b80\u5316\u6210\u51e1\u662f\u4f4e\u8ba1\u6570\u5c31\u5220\u6389\uff0c\u4f1a\u9057\u6f0f\u8fd9\u91cc\u7684\u5177\u4f53\u8ba1\u7b97\u6761\u4ef6\u3002\u9700\u8981\u590d\u6838\u65f6\uff0c\u5e94\u67e5\u770b\u7ed3\u679c\u5bf9\u8c61\u4fdd\u5b58\u7684\u8fc7\u6ee4\u9608\u503c\u53ca\u8bbe\u7f6e\uff0c\u800c\u4e0d\u662f\u6839\u636e\u8089\u773c\u5370\u8c61\u731c\u6d4b\u54ea\u4e9b\u884c\u5e94\u8be5\u4e3a\u7a7a\u3002<\/p>\n<p>\u72ec\u7acb\u8fc7\u6ee4\u548c\u5f02\u5e38\u8bca\u65ad\u7b49\u9009\u9879\u7684\u5b8c\u6574\u5b9a\u4e49\uff0c\u53ef\u5728 <a style=\"color:#b06418;text-decoration:underline;text-underline-offset:2px\" href=\"https:\/\/bioconductor.org\/packages\/release\/bioc\/vignettes\/DESeq2\/inst\/doc\/DESeq2.html\">DESeq2 \u5b98\u65b9\u6559\u7a0b<\/a> \u4e2d\u67e5\u9605\u3002\u672c\u6587\u6240\u5217\u6570\u503c\u5747\u6765\u81ea\u56fa\u5b9a\u7684\u65e7\u7248\u672c\u5b9e\u8dd1\uff0c\u4e0d\u80fd\u7528\u5728\u7ebf\u6587\u6863\u7684\u7248\u672c\u53f7\u66ff\u6362\u8fd0\u884c\u8bb0\u5f55\u4e2d\u7684\u7248\u672c\u53f7\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u663e\u8457\u4e0d\u4e3a\u96f6\uff0c\u4e0e\u663e\u8457\u8d85\u8fc7\u4e24\u500d\u5e76\u975e\u540c\u4e00\u4e2a\u95ee\u9898<\/h2>\n<p>\u9ed8\u8ba4\u6bd4\u8f83\u5728\u6821\u6b63\u503c\u5c0f\u4e8e\u96f6\u70b9\u96f6\u4e94\u65f6\u5f97\u5230\u4e00\u767e\u516d\u5341\u516b\u6761\u3002\u63a5\u7740\u6211\u4eec\u660e\u786e\u68c0\u9a8c\u7edd\u5bf9\u5bf9\u6570\u500d\u6570\u53d8\u5316\u662f\u5426\u8d85\u8fc7\u4e00\uff0c\u5f97\u5230\u4e00\u767e\u4e94\u5341\u6761\u3002\u8fd9\u4e2a\u95ee\u9898\u5bf9\u5e94\u7684\u662f\u662f\u5426\u6709\u8bc1\u636e\u652f\u6301\u53d8\u5316\u5e45\u5ea6\u8d85\u8fc7\u4e24\u500d\uff0c\u800c\u4e0d\u53ea\u662f\u662f\u5426\u504f\u79bb\u96f6\u3002<\/p>\n<p>\u4ee5\u7b2c\u4e00\u6761\u7279\u5f81\u4e3a\u4f8b\uff0c\u6548\u5e94\u4f30\u8ba1\u4ecd\u7ea6\u4e3a\u4e00\u70b9\u4e03\u4e00\u56db\uff0c\u4f46\u68c0\u9a8c\u8f83\u5927\u6548\u5e94\u95e8\u69db\u65f6\u7684\u539f\u59cb P \u503c\u7ea6\u4e3a\u96f6\u70b9\u96f6\u96f6\u96f6\u96f6\u4e09\u4e5d\u4e00\u56db\uff0c\u4e0e\u9ed8\u8ba4\u68c0\u9a8c\u7684\u6781\u5c0f\u503c\u4e0d\u540c\u3002\u4f30\u8ba1\u503c\u6ca1\u6709\u6539\u53d8\uff0c\u7edf\u8ba1\u95ee\u9898\u6539\u53d8\u4e86\u3002\u7ed3\u679c\u8868\u4e0d\u80fd\u53ea\u6839\u636e\u540c\u6837\u7684\u5217\u540d\u5408\u5e76\uff0c\u8fd8\u5e94\u8bb0\u5f55\u68c0\u9a8c\u7684\u5047\u8bbe\u4e0e\u9608\u503c\u3002<\/p>\n<p>\u8fd9\u91cc\u4e5f\u8981\u533a\u5206\u7edf\u8ba1\u68c0\u9a8c\u4e0e\u7ed3\u679c\u540e\u7684\u7b5b\u9009\u3002\u5148\u68c0\u9a8c\u4e0d\u4e3a\u96f6\uff0c\u518d\u6309\u4f30\u8ba1\u500d\u6570\u5927\u4e8e\u4e24\u500d\u622a\u53d6\uff0c\u4e0e\u76f4\u63a5\u68c0\u9a8c\u6548\u5e94\u8d85\u8fc7\u4e24\u500d\uff0c\u56de\u7b54\u7684\u95ee\u9898\u4e0d\u540c\u3002\u672c\u6b21\u5b9e\u9645\u6267\u884c\u4e86\u540e\u8005\u3002\u6587\u7ae0\u6ca1\u6709\u8fdb\u884c\u6548\u5e94\u6536\u7f29\uff0c\u56e0\u6b64\u4e5f\u6ca1\u6709\u628a\u539f\u59cb\u4f30\u8ba1\u5199\u6210\u6536\u7f29\u540e\u7684\u6392\u5e8f\u7ed3\u679c\u3002<\/p>\n<pre style=\"max-width:100%;box-sizing:border-box;overflow-x:auto;margin:18px 0;padding:14px 16px;background:#f3f6fa;color:#1a293c;border:1px solid #d8e1ea;border-radius:8px;line-height:1.55;white-space:pre;overflow-wrap:normal;word-break:normal\"><code class=\"language-r\">large_effect &lt;- results(\r\n  dds,\r\n  contrast = c(&quot;condition&quot;, &quot;treated&quot;, &quot;control&quot;),\r\n  alpha = 0.05,\r\n  lfcThreshold = 1,\r\n  altHypothesis = &quot;greaterAbs&quot;\r\n)\r\n<\/code><\/pre>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u5b89\u88c5\u4e0e\u590d\u73b0\u4e2d\u5f97\u5230\u7684\u7ecf\u9a8c<\/h2>\n<p>\u672c\u6b21\u4f7f\u7528 R 4.5.2 \u548c DESeq2 1.50.2\uff0c\u5bf9\u5e94 Bioconductor 3.22 \u7684\u8f6f\u4ef6\u7cfb\u5217\uff0c\u7248\u672c\u5173\u7cfb\u89c1 <a style=\"color:#b06418;text-decoration:underline;text-underline-offset:2px\" href=\"https:\/\/bioconductor.org\/packages\/3.22\/bioc\/html\/DESeq2.html\">\u8be5\u7248\u672c\u8f6f\u4ef6\u9875\u9762<\/a>\u3002\u9996\u6b21\u4ece\u6e90\u5305\u4e0b\u8f7d\u4e3b\u8f6f\u4ef6\u65f6\u56e0\u7f51\u7edc\u8d85\u65f6\u5931\u8d25\uff0c\u968f\u540e\u4f7f\u7528\u6821\u9a8c\u8fc7\u7684\u9884\u7f16\u8bd1\u5305\u653e\u5165\u72ec\u7acb\u5e93\uff0c\u518d\u5b8c\u6210\u52a0\u8f7d\u4e0e\u62df\u5408\u3002\u4f9d\u8d56\u7248\u672c\u548c\u8fd0\u884c\u63d0\u793a\u90fd\u4fdd\u7559\u5728\u8bb0\u5f55\u4e2d\u3002<\/p>\n<p>\u73af\u5883\u66fe\u63d0\u793a\u4e00\u4e2a\u4f9d\u8d56\u5305\u7531\u8f83\u65b0\u7684 R \u8865\u4e01\u7248\u672c\u6784\u5efa\u3002\u6211\u4eec\u6ca1\u6709\u628a\u63d0\u793a\u5220\u9664\u6216\u63cf\u8ff0\u6210\u5b8c\u5168\u4e00\u81f4\u7684\u6784\u5efa\u73af\u5883\uff0c\u800c\u662f\u8bb0\u5f55\u5f53\u524d\u7ec4\u5408\u5df2\u7ecf\u5b8c\u6210\u7684\u5177\u4f53\u8fd0\u884c\u3002\u5bf9\u4e8e\u9700\u8981\u957f\u671f\u91cd\u73b0\u7684\u5206\u6790\uff0c\u5e94\u4fdd\u5b58\u5b8c\u6574\u4f1a\u8bdd\u4fe1\u606f\u53ca\u5305\u6765\u6e90\uff0c\u4e0d\u80fd\u53ea\u8bb0\u4f4f\u5b89\u88c5\u547d\u4ee4\u3002\u66f4\u65b0\u4f9d\u8d56\u4e4b\u540e\uff0c\u4e5f\u5e94\u91cd\u65b0\u6838\u5bf9\u5173\u952e\u7ed3\u679c\uff0c\u4e0d\u5e94\u9ed8\u8ba4\u4e0e\u65e7\u73af\u5883\u9010\u4f4d\u76f8\u540c\u3002<\/p>\n<p>\u4e0b\u8f7d <a style=\"color:#b06418;text-decoration:underline;text-underline-offset:2px\" href=\"https:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2026\/11\/ysx-bioinformatics-practice-156-158-497c88eef8e3.zip\">\u672c\u7ec4\u5b9e\u8dd1\u811a\u672c\u548c\u7ed3\u679c<\/a> \u540e\uff0c\u5728\u6709 Docker \u7684 Linux \u73af\u5883\u4e2d\u8fd0\u884c DESeq2 \u76ee\u5f55\u4e0b\u7684\u9a71\u52a8\u811a\u672c\u3002\u811a\u672c\u5185\u542b\u6570\u636e\u751f\u6210\u4e0e\u5206\u6790\u4ee3\u7801\uff0c\u8f93\u51fa\u539f\u59cb\u8ba1\u6570\u3001\u6837\u672c\u8868\u3001\u5404\u7ec4\u7ed3\u679c\u548c\u4f1a\u8bdd\u4fe1\u606f\u3002\u5b83\u4f7f\u7528\u56fa\u5b9a\u955c\u50cf\u4e0e\u72ec\u7acb\u8f6f\u4ef6\u5e93\uff0c\u4e0d\u9700\u8981\u4fee\u6539\u5df2\u6709\u9879\u76ee\u7684 R \u5305\u3002<\/p>\n<pre style=\"max-width:100%;box-sizing:border-box;overflow-x:auto;margin:18px 0;padding:14px 16px;background:#f3f6fa;color:#1a293c;border:1px solid #d8e1ea;border-radius:8px;line-height:1.55;white-space:pre;overflow-wrap:normal;word-break:normal\"><code class=\"language-bash\">python3 run.py run158\r\n<\/code><\/pre>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u4f18\u70b9\u548c\u5c40\u9650\u5e94\u653e\u5728\u5177\u4f53\u95ee\u9898\u4e2d\u8bc4\u4ef7<\/h2>\n<p>DESeq2 \u7684\u4f18\u70b9\u5728\u4e8e\u80fd\u591f\u7528\u660e\u786e\u8bbe\u8ba1\u8868\u8fbe\u6bd4\u8f83\u76ee\u6807\uff0c\u5e76\u63d0\u4f9b\u53ef\u68c0\u67e5\u7684\u6548\u5e94\u3001\u6807\u51c6\u8bef\u548c\u8bca\u65ad\u72b6\u6001\u3002\u672c\u6b21\u540c\u4e00\u62df\u5408\u5bf9\u8c61\u4e0a\u63d0\u53d6\u4e0d\u540c\u5bf9\u6bd4\uff0c\u4f7f\u6bd4\u8f83\u65b9\u5411\u548c\u68c0\u9a8c\u76ee\u6807\u80fd\u591f\u88ab\u76f4\u63a5\u6838\u5bf9\u3002\u5bf9\u6709\u751f\u7269\u5b66\u91cd\u590d\u3001\u8ba1\u6570\u6765\u6e90\u6e05\u695a\u3001\u8bbe\u8ba1\u53ef\u8bc6\u522b\u7684\u8868\u8fbe\u5206\u6790\uff0c\u8fd9\u662f\u5f88\u6709\u4ef7\u503c\u7684\u5de5\u4f5c\u65b9\u5f0f\u3002<\/p>\n<p>\u5c40\u9650\u5728\u4e8e\uff0c\u5b83\u4e0d\u4f1a\u66ff\u4f60\u7ea0\u6b63\u6837\u672c\u6807\u7b7e\uff0c\u4e0d\u4f1a\u4ece\u5b8c\u5168\u6df7\u6742\u7684\u8bbe\u8ba1\u4e2d\u6062\u590d\u72ec\u7acb\u6548\u5e94\uff0c\u4e5f\u4e0d\u4f1a\u628a\u6240\u6709\u7a7a\u503c\u81ea\u52a8\u89e3\u91ca\u6210\u540c\u4e00\u4e2a\u539f\u56e0\u3002\u6a21\u62df\u8ba1\u6570\u4e0a\u7684\u6210\u529f\u62df\u5408\u8fd8\u6ca1\u6709\u9a8c\u8bc1\u8bfb\u6bb5\u8d28\u63a7\u3001\u6bd4\u5bf9\u548c\u57fa\u56e0\u5b9a\u91cf\u3002\u672c\u7bc7\u4e5f\u672a\u8fd0\u884c\u53ef\u89c6\u5316\u53d8\u6362\u3001\u5355\u7ec6\u80de\u5206\u6790\u6216\u771f\u5b9e\u6570\u636e\u6bd4\u8f83\uff0c\u4e0d\u80fd\u628a\u8fd9\u4e9b\u80fd\u529b\u7b97\u4f5c\u5df2\u5b8c\u6210\u5b9e\u6d4b\u3002<\/p>\n<p>\u8bfb\u5b8c\u540e\u6700\u503c\u5f97\u7acb\u5373\u68c0\u67e5\u7684\u662f\u5df2\u6709\u7ed3\u679c\u7684\u4e09\u4e2a\u4f4d\u7f6e\u3002\u6bd4\u8f83\u65b9\u5411\u6709\u6ca1\u6709\u660e\u786e\u5199\u51fa\uff0c\u6837\u672c\u8bbe\u8ba1\u80fd\u5426\u652f\u6301\u8fd9\u4e2a\u6bd4\u8f83\uff0c\u7f3a\u5931\u503c\u6709\u6ca1\u6709\u6309\u6765\u6e90\u89e3\u91ca\u3002\u628a\u8fd9\u4e09\u5904\u8865\u9f50\uff0c\u901a\u5e38\u6bd4\u518d\u52a0\u4e00\u5f20\u706b\u5c71\u56fe\u66f4\u80fd\u63d0\u9ad8\u7ed3\u679c\u7684\u53ef\u590d\u6838\u6027\uff0c\u4e5f\u80fd\u8ba9\u540e\u7eed\u7684\u901a\u8def\u5206\u6790\u56f4\u7ed5\u6b63\u786e\u7684\u5019\u9009\u96c6\u5408\u5c55\u5f00\u3002<\/p>\n<p class=\"guide-end\" style=\"margin-top:1.6em;padding-top:1.0em;border-top:1px solid #d7e0e9\">\u5f53\u8fd9\u4e9b\u5206\u6790\u89c4\u5219\u9700\u8981\u5728\u591a\u6279\u6b21\u6570\u636e\u4e2d\u7a33\u5b9a\u590d\u7528\u65f6\uff0c\u53ef\u6309\u9879\u76ee\u89c4\u6a21\u4e86\u89e3 <a data-ysx-event=\"contact_click\" style=\"color:#b06418;text-decoration:underline;text-underline-offset:2px\" href=\"https:\/\/www.biocloudservice.com\/wordpress\/compute-services\/shared-research-workspace\/\">\u4e91\u751f\u4fe1\u751f\u7269\u4fe1\u606f\u5b66\u5206\u6790\u670d\u52a1\u5668\u670d\u52a1<\/a>\u3002<\/p>\n<\/div>\n","protected":false},"excerpt":{"rendered":"<p>\u5728\u56fa\u5b9a\u7248\u672c DESeq2 \u4e2d\u5b9e\u9645\u62df\u5408\u6a21\u62df\u8ba1\u6570\uff0c\u89e6\u53d1\u4e09\u79cd\u8f93\u5165\u9519\u8bef\uff0c\u6bd4\u8f83\u6b63\u53cd\u5bf9\u6bd4\u3001\u4e09\u7c7b\u7f3a\u5931\u72b6\u6001\u548c\u6548\u5e94\u9608\u503c\uff0c\u8bf4\u660e\u6807\u51c6\u5316\u8ba1\u6570\u4e0e\u6279\u6b21\u63a7\u5236\u7684\u533a\u522b\u3002<\/p>\n","protected":false},"author":1,"featured_media":73174,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_feature_clip_id":0,"_jetpack_memberships_contains_paid_content":false,"footnotes":"","jetpack_post_was_ever_published":false},"categories":[49],"tags":[121,80,182,1386],"class_list":["post-73175","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-software","tag-deseq2","tag-rna-seq","tag-182","tag-1386"],"jetpack_sharing_enabled":true,"jetpack_featured_media_url":"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2026\/11\/deseq2-design-contrast-na-independent-filter-cooks-practice-guide.png?fit=1200%2C840&ssl=1","_links":{"self":[{"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/posts\/73175","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/comments?post=73175"}],"version-history":[{"count":2,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/posts\/73175\/revisions"}],"predecessor-version":[{"id":73181,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/posts\/73175\/revisions\/73181"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/media\/73174"}],"wp:attachment":[{"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/media?parent=73175"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/categories?post=73175"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.biocloudservice.com\/wordpress\/wp-json\/wp\/v2\/tags?post=73175"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}