{"id":73035,"date":"2026-11-15T13:25:49","date_gmt":"2026-11-15T05:25:49","guid":{"rendered":"https:\/\/www.biocloudservice.com\/wordpress\/?p=73035"},"modified":"2026-11-15T13:28:47","modified_gmt":"2026-11-15T05:28:47","slug":"featurecounts-paired-fragments-overlap-fraction-strand-practice","status":"publish","type":"post","link":"https:\/\/www.biocloudservice.com\/wordpress\/featurecounts-paired-fragments-overlap-fraction-strand-practice\/","title":{"rendered":"featureCounts \u5b9e\u8dd1\u4e03\u7ec4\u8ba1\u6570\u89c4\u5219\uff0c\u4e3a\u4ec0\u4e48\u540c\u4e00\u4e2a BAM \u4f1a\u5f97\u5230\u4e0d\u540c\u7684\u57fa\u56e0\u8ba1\u6570"},"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>\u4e24\u4e2a\u5206\u6790\u4eba\u5458\u62ff\u5230\u540c\u4e00\u4e2a\u6bd4\u5bf9\u6587\u4ef6\uff0c\u6700\u540e\u7684\u57fa\u56e0\u8ba1\u6570\u5374\u4e0d\u4e00\u6837\uff0c\u95ee\u9898\u4e0d\u4e00\u5b9a\u51fa\u5728\u6587\u4ef6\u635f\u574f\u3002\u4e00\u4e2a\u4eba\u6309\u5355\u6761\u8bfb\u6bb5\u8ba1\u6570\uff0c\u53e6\u4e00\u4e2a\u4eba\u6309\u53cc\u7aef\u7247\u6bb5\u8ba1\u6570\uff0c\u4e00\u4e2a\u4eba\u4e22\u5f03\u591a\u4f4d\u7f6e\u6bd4\u5bf9\uff0c\u53e6\u4e00\u4e2a\u4eba\u5141\u8bb8\u5206\u644a\uff0c\u5f97\u5230\u4e0d\u540c\u6570\u5b57\u5b8c\u5168\u53ef\u80fd\u3002\u771f\u6b63\u9700\u8981\u6838\u5bf9\u7684\u662f\u6bcf\u4e00\u4e2a\u6570\u5b57\u5bf9\u5e94\u4ec0\u4e48\u5bf9\u8c61\uff0c\u4ee5\u53ca\u54ea\u4e9b\u8bc1\u636e\u88ab\u63a5\u53d7\u3001\u6392\u9664\u6216\u8005\u91cd\u590d\u5206\u914d\u3002<\/p>\n<p>featureCounts \u5c5e\u4e8e Subread \u8f6f\u4ef6\u5305\uff0c\u8d1f\u8d23\u628a\u5df2\u7ecf\u6bd4\u5bf9\u7684\u8bfb\u6bb5\u5206\u914d\u5230\u6ce8\u91ca\u5b9a\u4e49\u7684\u533a\u57df\u3002\u5b83\u53ef\u4ee5\u5904\u7406\u57fa\u56e0\u3001\u5916\u663e\u5b50\u7b49\u4e0d\u540c\u8ba1\u6570\u5bf9\u8c61\u3002\u672c\u7bc7\u5b9e\u9645\u5b89\u88c5\u5e76\u8fd0\u884c\u7684\u662f\u5176\u4e2d\u7684 featureCounts\uff0c\u6ca1\u6709\u8fd0\u884c Subread \u6216 Subjunc \u6bd4\u5bf9\u5668\u3002\u6211\u4eec\u6784\u9020\u4e00\u4efd\u5c0f\u5230\u53ef\u4ee5\u9010\u884c\u6838\u5bf9\u7684\u6ce8\u91ca\u548c\u6bd4\u5bf9\u6587\u4ef6\uff0c\u8dd1\u4e03\u7ec4\u53c2\u6570\uff0c\u89e3\u91ca\u53cc\u7aef\u3001\u91cd\u53e0\u3001\u591a\u4f4d\u7f6e\u548c\u94fe\u65b9\u5411\u5982\u4f55\u6539\u53d8\u7ed3\u679c\u3002\u8fd9\u91cc\u4e0d\u6bd4\u8f83\u901f\u5ea6\uff0c\u4e5f\u4e0d\u628a\u89c4\u5219\u6d4b\u8bd5\u5f53\u6210\u771f\u5b9e\u6837\u672c\u7684\u8868\u8fbe\u5206\u6790\u3002<\/p>\n<figure class=\"guide-figure\" style=\"margin:24px 0 28px\"><img loading=\"lazy\" decoding=\"async\" src=\"\/wordpress\/wp-content\/uploads\/2026\/11\/featurecounts-paired-fragments-overlap-fraction-strand-practice-guide.png\" alt=\"\u540c\u4e00\u4e2a BAM\uff0c\u4e3a\u4f55\u8ba1\u6570\u4e0d\u540c\u3002\u4e03\u7ec4\u5b9e\u9645\u8ba1\u6570\uff0c\u8ffd\u6eaf\u6bcf\u4e00\u4efd\u8d21\u732e\u7684\u6765\u6e90\u3002\u8ba1\u6570\u5355\u4f4d\uff0c\u5148\u786e\u8ba4\u6309\u4ec0\u4e48\u5355\u4f4d\u8ba1\u6570\uff0c\u53cc\u7aef\u8f93\u5165\u4e0e\u6309\u7247\u6bb5\u6c47\u603b\u662f\u4e24\u4e2a\u8bbe\u7f6e\u30026 \u2260 5\uff0c\u7edf\u8ba1\u6570\u4e0e\u6743\u91cd\u548c\u53ef\u4ee5\u4e0d\u540c\uff0c\u591a\u4f4d\u7f6e\u6bd4\u5bf9\u6570\u4e0d\u7b49\u4e8e\u72ec\u7acb\u7247\u6bb5\u6570\u3002\u94fe\u65b9\u5411\uff0c\u8d1f\u94fe\u57fa\u56e0\u4e0d\u7b49\u4e8e\u53cd\u5411\u6587\u5e93\uff0c\u6838\u5bf9\u8bfb\u6bb5\u76f8\u5bf9\u8f6c\u5f55\u65b9\u5411\u7684\u5173\u7cfb\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\">\u4e03\u7ec4\u5b9e\u9645\u8ba1\u6570\uff0c\u8ffd\u6eaf\u6bcf\u4e00\u4efd\u8d21\u732e\u7684\u6765\u6e90<\/figcaption><\/figure>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u5148\u5206\u6e05\u6ce8\u91ca\u533a\u57df\u548c\u6c47\u603b\u5bf9\u8c61<\/h2>\n<p>\u5e38\u89c1\u547d\u4ee4\u4e2d\u7684 <code>-t exon -g gene_id<\/code> \u5305\u542b\u4e24\u5c42\u610f\u601d\u3002\u9996\u5148\u9009\u51fa\u6ce8\u91ca\u7b2c\u4e09\u5217\u4e3a\u5916\u663e\u5b50\u7684\u884c\uff0c\u518d\u6839\u636e\u5c5e\u6027\u4e2d\u7684\u57fa\u56e0\u7f16\u53f7\u6c47\u603b\u3002\u4e00\u4e2a\u57fa\u56e0\u53ef\u4ee5\u6709\u591a\u4e2a\u5916\u663e\u5b50\uff0c\u4e5f\u53ef\u4ee5\u56e0\u4e3a\u5b58\u5728\u591a\u4e2a\u8f6c\u5f55\u672c\u800c\u51fa\u73b0\u91cd\u53e0\u7684\u5916\u663e\u5b50\u8bb0\u5f55\u3002\u6309\u57fa\u56e0\u6c47\u603b\u65f6\uff0c\u4e0d\u5e94\u628a\u6bcf\u4e00\u884c\u6ce8\u91ca\u90fd\u60f3\u6210\u4e00\u5f20\u72ec\u7acb\u7684\u8ba1\u6570\u7968\u3002<\/p>\n<p>\u672c\u6b21\u8bbe\u8ba1\u4e86\u4e09\u4e2a\u57fa\u56e0\u3002\u6b63\u94fe\u57fa\u56e0 A \u6709\u4e24\u4e2a\u5916\u663e\u5b50\uff0c\u6b63\u94fe\u57fa\u56e0 B \u4e0e\u5176\u4e2d\u4e00\u4e2a\u53d1\u751f\u91cd\u53e0\uff0c\u8d1f\u94fe\u57fa\u56e0 C \u4f4d\u4e8e\u53e6\u4e00\u533a\u57df\u3002\u5b83\u4eec\u90fd\u5728\u540c\u4e00\u6761\u4eba\u5de5\u67d3\u8272\u4f53\u4e0a\uff0c\u5750\u6807\u91c7\u7528\u6ce8\u91ca\u6587\u4ef6\u7684\u4e00\u57fa\u5236\u95ed\u533a\u95f4\u3002\u8fd9\u6837\u65e2\u80fd\u89c2\u5bdf\u540c\u4e00\u57fa\u56e0\u7684\u591a\u4e2a\u5916\u663e\u5b50\uff0c\u4e5f\u80fd\u89c2\u5bdf\u4e0d\u540c\u57fa\u56e0\u76f8\u4e92\u91cd\u53e0\u7684\u60c5\u51b5\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:#eff9fc;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u57fa\u56e0<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#eff9fc;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u94fe<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#eff9fc;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u5916\u663e\u5b50\u5750\u6807<\/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\">A<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u6b63\u94fe<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">101\u2013200\u3001301\u2013400<\/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\">B<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u6b63\u94fe<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">151\u2013250<\/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\">C<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u8d1f\u94fe<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">601\u2013750<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n<p>\u8fd9\u91cc\u5bb9\u6613\u51fa\u73b0\u7684\u9519\u8bef\uff0c\u662f\u5148\u628a\u6bcf\u4e2a\u5916\u663e\u5b50\u7684\u8ba1\u6570\u76f8\u52a0\uff0c\u518d\u628a\u8fd9\u4e2a\u548c\u5f53\u6210\u57fa\u56e0\u8ba1\u6570\u3002\u4e00\u4e2a\u8de8\u8d8a\u540c\u4e00\u57fa\u56e0\u591a\u4e2a\u5916\u663e\u5b50\u7684\u7247\u6bb5\u53ef\u80fd\u88ab\u91cd\u590d\u52a0\u5165\u3002featureCounts \u7684\u57fa\u56e0\u5c42\u7ea7\u6c47\u603b\u6709\u81ea\u5df1\u7684\u53bb\u91cd\u548c\u5f52\u5c5e\u89c4\u5219\uff0c\u4e0d\u80fd\u7528\u4e00\u4e2a\u6ca1\u6709\u6838\u5bf9\u5bf9\u8c61\u7684\u6c42\u548c\u64cd\u4f5c\u4ee3\u66ff\u3002\u5b98\u65b9\u8bf4\u660e\u533a\u5206\u4e86\u533a\u57df\u672c\u8eab\u4e0e\u6309\u6807\u8bc6\u7ec4\u5408\u7684\u6c47\u603b\u5bf9\u8c61\uff0c\u9605\u8bfb\u8f93\u51fa\u524d\u5e94\u5148\u5f04\u6e05\u81ea\u5df1\u4f7f\u7528\u54ea\u4e00\u5c42\u3002<a style=\"color:#287e9c;text-decoration:underline;text-underline-offset:2px\" href=\"https:\/\/subread.sourceforge.net\/featureCounts.html\">featureCounts \u5b98\u65b9\u8bf4\u660e<\/a><\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u516d\u4e2a\u7247\u6bb5\u4e3a\u4ec0\u4e48\u4f1a\u53d8\u6210\u5341\u56db\u6761\u8bb0\u5f55<\/h2>\n<p>\u8f93\u5165\u4e2d\u53ea\u6709\u516d\u4e2a\u4e0d\u540c\u7684\u7247\u6bb5\u540d\u79f0\u3002\u5176\u4e2d\u4e00\u4e2a\u7247\u6bb5\u6709\u4e24\u4e2a\u6bd4\u5bf9\u4f4d\u7f6e\uff0c\u56e0\u6b64\u4ea7\u751f\u4e24\u7ec4\u53cc\u7aef\u6bd4\u5bf9\uff0c\u5176\u4f59\u4e94\u4e2a\u7247\u6bb5\u5404\u6709\u4e00\u7ec4\u3002\u603b\u8ba1\u4e03\u7ec4\u6bd4\u5bf9\u3001\u5341\u56db\u6761 SAM \u8bb0\u5f55\u3002\u8fd9\u4e2a\u5173\u7cfb\u662f\u540e\u9762\u6838\u5bf9\u7edf\u8ba1\u8868\u7684\u5173\u952e\uff0c\u4e0d\u80fd\u770b\u5230\u5341\u56db\u6761\u8bb0\u5f55\u5c31\u8ba4\u4e3a\u6d4b\u5230\u4e86\u5341\u56db\u4e2a\u72ec\u7acb\u5206\u5b50\u3002<\/p>\n<p>\u516d\u4e2a\u8bbe\u8ba1\u5206\u522b\u5bf9\u5e94\u660e\u786e\u5f52\u5c5e A\u3001\u660e\u786e\u5f52\u5c5e C\u3001\u5b58\u5728\u4e24\u4e2a\u6bd4\u5bf9\u4f4d\u7f6e\u3001\u4e0d\u843d\u5728\u4efb\u4f55\u5916\u663e\u5b50\u3001\u5355\u7aef\u5b58\u5728\u57fa\u56e0\u91cd\u53e0\uff0c\u4ee5\u53ca\u53cc\u7aef\u90fd\u5b58\u5728\u57fa\u56e0\u91cd\u53e0\u3002\u6bcf\u6761\u8bfb\u6bb5\u957f\u56db\u5341\u4e2a\u78b1\u57fa\uff0c\u5e8f\u5217\u548c\u8d28\u91cf\u5217\u4f7f\u7528\u5360\u4f4d\u5b57\u7b26\u3002\u5750\u6807\u3001\u6807\u8bb0\u3001\u914d\u5bf9\u5173\u7cfb\u4ee5\u53ca\u591a\u4f4d\u7f6e\u6807\u7b7e\u624d\u662f\u6b64\u6b21\u8ba1\u6570\u6d4b\u8bd5\u7684\u8f93\u5165\u4e8b\u5b9e\u3002\u56e0\u6b64\uff0c\u8fd9\u4efd SAM \u9002\u5408\u68c0\u67e5\u8ba1\u6570\u89c4\u5219\uff0c\u4e0d\u9002\u5408\u8bc4\u4f30\u6bd4\u5bf9\u51c6\u786e\u6027\uff0c\u4e5f\u4e0d\u80fd\u7528\u4e8e\u7814\u7a76\u6d4b\u5e8f\u8d28\u91cf\u3002<\/p>\n<p>\u591a\u4f4d\u7f6e\u7247\u6bb5\u7684\u4e24\u7ec4\u6bd4\u5bf9\u90fd\u5e26\u6709 <code>NH:i:2<\/code>\uff0c\u5e76\u533a\u5206\u4e3b\u6bd4\u5bf9\u4e0e\u6b21\u6bd4\u5bf9\u3002\u8fd9\u8ba9\u7a0b\u5e8f\u77e5\u9053\u540c\u4e00\u7247\u6bb5\u5b58\u5728\u591a\u4e2a\u4f4d\u7f6e\u3002\u5982\u679c\u4e0a\u6e38\u6587\u4ef6\u6ca1\u6709\u6b63\u786e\u4fdd\u7559\u8fd9\u4e9b\u6807\u7b7e\uff0c\u540e\u7eed\u5141\u8bb8\u591a\u4f4d\u7f6e\u548c\u5206\u644a\u7684\u53c2\u6570\u5c31\u53ef\u80fd\u8131\u79bb\u539f\u6765\u7684\u8bc1\u636e\u3002\u68c0\u67e5 BAM \u65f6\u4e0d\u80fd\u53ea\u770b\u67d3\u8272\u4f53\u5750\u6807\uff0c\u8fd8\u8981\u6838\u5bf9\u51b3\u5b9a\u8ba1\u6570\u884c\u4e3a\u7684\u6807\u7b7e\u662f\u5426\u5b8c\u6574\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u5b89\u88c5\u548c\u5b8c\u6574\u590d\u73b0\u8303\u56f4<\/h2>\n<p>\u672c\u6b21\u4f7f\u7528\u7684\u5bb9\u5668\u6807\u7b7e\u4e3a <code>subread:2.1.1--h577a1d6_0<\/code>\uff0c\u7a0b\u5e8f\u5b9e\u9645\u62a5\u544a\u7248\u672c\u4e8c\u70b9\u4e00\u4e00\u70b9\u4e00\u3002\u516c\u5f00\u590d\u73b0\u811a\u672c\u8fdb\u4e00\u6b65\u9501\u5b9a\u955c\u50cf\u6458\u8981\uff0c\u907f\u514d\u6807\u7b7e\u6307\u5411\u6539\u53d8\u540e\u65e0\u6cd5\u91cd\u73b0\u3002\u811a\u672c\u5728 Linux \u4e3b\u673a\u4e0a\u751f\u6210\u8f93\u5165\u3001\u8c03\u7528\u5bb9\u5668\u5e76\u8bfb\u53d6\u8f93\u51fa\uff0c\u5bb9\u5668\u5185\u90e8\u4e0d\u8981\u6c42\u5b89\u88c5 Python\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\">docker pull quay.io\/biocontainers\/subread:2.1.1--h577a1d6_0\r\ndocker run --rm quay.io\/biocontainers\/subread:2.1.1--h577a1d6_0 \\\r\n  featureCounts -v\r\n\r\n# \u89e3\u538b\u590d\u73b0\u5305\u540e\uff0c\u5728\u5bf9\u5e94\u5de5\u5177\u76ee\u5f55\u6267\u884c\r\npython3 run.py .\/practice\r\n<\/code><\/pre>\n<p>\u811a\u672c\u5305\u542b\u4e03\u6b21\u5b9e\u9645\u8ba1\u6570\uff0c\u6bcf\u6b21\u9000\u51fa\u7801\u5747\u4e3a\u96f6\uff0c\u4fdd\u5b58\u8ba1\u6570\u77e9\u9635\u3001\u5206\u7c7b\u7edf\u8ba1\u3001\u9010\u6761\u5f52\u5c5e\u8bb0\u5f55\u548c\u8fd0\u884c\u65e5\u5fd7\u3002\u672c\u6587\u5c55\u793a\u7684\u6570\u5b57\u5747\u6765\u81ea\u8fd9\u4e9b\u8f93\u51fa\u3002\u5c0f\u8f93\u5165\u8ba9\u6211\u4eec\u80fd\u591f\u89e3\u91ca\u6bcf\u6b21\u53d8\u5316\uff0c\u5374\u4e0d\u80fd\u7528\u4e8e\u63a8\u65ad\u5927\u89c4\u6a21\u961f\u5217\u7684\u541e\u5410\u91cf\u3001\u5185\u5b58\u6d88\u8017\u6216\u67d0\u79cd\u6587\u5e93\u5728\u771f\u5b9e\u9879\u76ee\u4e2d\u7684\u4fdd\u7559\u7387\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u7b2c\u4e00\u4e2a\u5bf9\u7167\uff0c\u53cc\u7aef\u8f93\u5165\u4e0d\u4e00\u5b9a\u6309\u7247\u6bb5\u8ba1\u6570<\/h2>\n<p>\u5728\u672c\u6b21\u7248\u672c\u4e2d\uff0c<code>-p<\/code> \u7528\u6765\u58f0\u660e\u8f93\u5165\u5305\u542b\u53cc\u7aef\u8bfb\u6bb5\uff0c\u8fd8\u9700\u8981 <code>--countReadPairs<\/code> \u624d\u6309\u7247\u6bb5\u6c47\u603b\u3002\u6211\u4eec\u53ea\u6539\u53d8\u8fd9\u4e00\u4e2a\u9009\u9879\uff0cA \u7684\u8ba1\u6570\u4ece\u4e8c\u53d8\u6210\u4e00\uff0cC \u4ece\u4e8c\u53d8\u6210\u4e00\uff0c\u800c B \u4ecd\u7136\u662f\u4e00\u3002\u65e5\u5fd7\u4e5f\u660e\u786e\u8bb0\u5f55\u7b2c\u4e00\u7ec4\u6ca1\u6709\u5f00\u542f\u8bfb\u5bf9\u8ba1\u6570\uff0c\u7b2c\u4e8c\u7ec4\u5f00\u542f\u4e86\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\"># \u6309\u5355\u6761 read \u8ba1\u6570\r\nfeatureCounts -T 2 -t exon -g gene_id \\\r\n  -a genes.gtf -o reads.txt -p input.sam\r\n\r\n# \u6309\u53cc\u7aef\u7247\u6bb5\u8ba1\u6570\r\nfeatureCounts -T 2 -t exon -g gene_id \\\r\n  -a genes.gtf -o fragments.txt \\\r\n  -p --countReadPairs input.sam\r\n<\/code><\/pre>\n<p>B \u4e3a\u4ec0\u4e48\u6ca1\u6709\u7b80\u5355\u5730\u51cf\u534a\uff1f\u56e0\u4e3a\u8ba1\u6570\u53d8\u5316\u53d6\u51b3\u4e8e\u5b9e\u9645\u5f52\u5c5e\uff0c\u4e0d\u80fd\u673a\u68b0\u5730\u628a\u6240\u6709\u57fa\u56e0\u9664\u4ee5\u4e8c\u3002\u8bbe\u8ba1\u4e2d\u7684\u4e00\u4e2a\u7247\u6bb5\uff0c\u7b2c\u4e00\u7aef\u540c\u65f6\u63a5\u89e6 A \u548c B\uff0c\u7b2c\u4e8c\u7aef\u53ea\u843d\u5728 B\u3002\u6309\u5355\u6761\u8bfb\u6bb5\u5904\u7406\u65f6\uff0c\u7b2c\u4e00\u7aef\u88ab\u6807\u4e3a\u6b67\u4e49\uff0c\u7b2c\u4e8c\u7aef\u8d21\u732e\u7ed9 B\u3002\u6309\u7247\u6bb5\u5904\u7406\u65f6\uff0c\u672c\u6b21\u7a0b\u5e8f\u628a\u8fd9\u7ec4\u914d\u5bf9\u8bc1\u636e\u6574\u4f53\u5f52\u7ed9 B\u3002\u4e24\u79cd\u65b9\u5f0f\u4e0b\u5b83\u90fd\u53ea\u8d21\u732e\u4e00\u4e2a B \u8ba1\u6570\u3002<\/p>\n<p>\u8fd9\u4e5f\u662f\u6700\u503c\u5f97\u4fdd\u7559\u9010\u6761\u5206\u914d\u6587\u4ef6\u7684\u5730\u65b9\u3002\u672c\u6b21\u7528 <code>-R CORE<\/code> \u5bfc\u51fa\u6bcf\u6761\u8bfb\u6bb5\u6216\u7247\u6bb5\u7684\u5f52\u5c5e\uff0c\u624d\u786e\u8ba4\u8fd9\u4e00\u73b0\u8c61\u3002\u53ea\u770b\u6700\u7ec8\u77e9\u9635\uff0c\u5bb9\u6613\u628a\u5b83\u8bef\u5224\u4e3a\u7a0b\u5e8f\u5c11\u7b97\u6216\u8005\u591a\u7b97\u3002\u5b9e\u9645\u9879\u76ee\u53d1\u73b0\u4e24\u5957\u77e9\u9635\u4e0d\u4e00\u81f4\u65f6\uff0c\u5148\u62bd\u53d6\u6709\u5dee\u5f02\u7684\u57fa\u56e0\u53ca\u5176\u90bb\u8fd1\u533a\u57df\uff0c\u6838\u5bf9\u51e0\u6761\u4ee3\u8868\u6027\u7247\u6bb5\uff0c\u901a\u5e38\u6bd4\u76f2\u76ee\u91cd\u8dd1\u5168\u90e8\u6837\u672c\u66f4\u6709\u6548\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u7b2c\u4e8c\u4e2a\u5bf9\u7167\uff0c\u4e00\u4e2a\u4f4d\u7f6e\u8de8\u591a\u4e2a\u57fa\u56e0<\/h2>\n<p>\u53e6\u4e00\u79cd\u7247\u6bb5\u7684\u4e24\u7aef\u90fd\u843d\u5728 A \u4e0e B \u7684\u91cd\u53e0\u533a\u57df\u3002\u9ed8\u8ba4\u7247\u6bb5\u8ba1\u6570\u628a\u5b83\u6807\u4e3a\u6b67\u4e49\uff0c\u6ca1\u6709\u52a0\u5165\u4efb\u4f55\u57fa\u56e0\u3002\u5141\u8bb8\u91cd\u53e0\u5206\u914d\u540e\uff0c\u8fd9\u4e2a\u7247\u6bb5\u53ef\u4ee5\u5206\u522b\u5bf9\u4e24\u4e2a\u57fa\u56e0\u8d21\u732e\u8ba1\u6570\uff0c\u524d\u9762\u90a3\u4e2a\u53ea\u6709\u4e00\u7aef\u53d1\u751f\u91cd\u53e0\u7684\u7247\u6bb5\u4e5f\u4f1a\u53d7\u5230\u89c4\u5219\u53d8\u5316\u5f71\u54cd\u3002<\/p>\n<p>\u6211\u4eec\u4ee5\u7247\u6bb5\u6a21\u5f0f\u4e3a\u57fa\u7ebf\uff0c\u5206\u522b\u52a0\u5165\u5141\u8bb8\u91cd\u53e0\u3001\u5141\u8bb8\u91cd\u53e0\u5e76\u5206\u644a\uff0c\u4ee5\u53ca\u540c\u65f6\u5141\u8bb8\u591a\u4f4d\u7f6e\u5e76\u5206\u644a\u3002\u8868\u4e2d\u7684\u540d\u79f0\u4ee3\u8868\u6574\u7ec4\u8bbe\u7f6e\uff0c\u5177\u4f53\u53c2\u6570\u5728\u540e\u6587\u5bf9\u5e94\uff0c\u4e0d\u5e94\u628a\u67d0\u4e2a\u7ed3\u679c\u5f52\u56e0\u4e8e\u5355\u4e00\u5b57\u6bcd\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:#eff9fc;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u89c4\u5219<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#eff9fc;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">A<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#eff9fc;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">B<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#eff9fc;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">C<\/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\">\u5355\u6761\u8bfb\u6bb5<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">2<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">2<\/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\">\u9ed8\u8ba4\u7247\u6bb5<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1<\/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\">\u91cd\u53e0\u5168\u8ba1<\/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\">2<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1<\/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\">\u91cd\u53e0\u5206\u644a<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">2<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1<\/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\">\u591a\u4f4d\u7f6e\u5206\u644a<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">2.5<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1.5<\/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\">\u6b63\u5411\u94fe<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">1<\/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\">\u53cd\u5411\u94fe<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">0<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">0<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">0<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n<p>\u4ec5\u52a0\u5165 <code>-O<\/code> \u65f6\uff0c\u4e00\u4e2a\u7247\u6bb5\u53ef\u4ee5\u5411\u591a\u4e2a\u57fa\u56e0\u5404\u8d21\u732e\u4e00\u4efd\uff0c\u6240\u4ee5\u57fa\u56e0\u8ba1\u6570\u603b\u548c\u53ef\u80fd\u5927\u4e8e\u6210\u529f\u5206\u914d\u7684\u7247\u6bb5\u6570\u3002\u672c\u6b21\u91cd\u53e0\u5168\u8ba1\u7ec4\u7684\u4e09\u4e2a\u57fa\u56e0\u52a0\u8d77\u6765\u662f\u516d\uff0c\u800c\u7edf\u8ba1\u8868\u6210\u529f\u5206\u914d\u4e3a\u56db\u3002\u4e24\u4e2a\u6570\u5b57\u7684\u5355\u4f4d\u4e0d\u540c\uff0c\u4e00\u4e2a\u662f\u57fa\u56e0\u7d2f\u8ba1\u8d21\u732e\uff0c\u4e00\u4e2a\u662f\u901a\u8fc7\u5206\u914d\u7684\u6bd4\u5bf9\u5355\u4f4d\uff0c\u4e0d\u80fd\u56e0\u4e3a\u4e0d\u76f8\u7b49\u5c31\u76f4\u63a5\u8ba4\u5b9a\u8f93\u51fa\u5f02\u5e38\u3002<\/p>\n<p>\u52a0\u5165 <code>--fraction<\/code> \u540e\uff0c\u8de8\u591a\u4e2a\u76ee\u6807\u7684\u8d21\u732e\u4f1a\u6309\u89c4\u5219\u5206\u644a\u3002\u8fd9\u6b21\u91cd\u53e0\u5206\u644a\u7ec4\u7684\u57fa\u56e0\u603b\u548c\u53d8\u4e3a\u56db\uff0c\u4e0e\u6210\u529f\u5206\u914d\u6570\u76f8\u7b26\u3002\u4f46\u8fd9\u79cd\u76f8\u7b49\u662f\u6b64\u6b21\u8f93\u5165\u548c\u53c2\u6570\u4e0b\u7684\u7ed3\u679c\uff0c\u4e0d\u662f\u6240\u6709\u6570\u636e\u90fd\u5fc5\u987b\u6ee1\u8db3\u7684\u6052\u7b49\u5f0f\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u7b2c\u4e09\u4e2a\u5bf9\u7167\uff0c\u591a\u4f4d\u7f6e\u548c\u591a\u57fa\u56e0\u662f\u4e24\u79cd\u95ee\u9898<\/h2>\n<p>\u540c\u4e00\u6761\u67d3\u8272\u4f53\u5750\u6807\u4e0a\u7684\u4e00\u7ec4\u6bd4\u5bf9\u53ef\u4ee5\u8986\u76d6\u591a\u4e2a\u57fa\u56e0\uff0c\u8fd9\u662f\u91cd\u53e0\u95ee\u9898\u3002\u540c\u4e00\u7247\u6bb5\u53ef\u4ee5\u5206\u522b\u6bd4\u5bf9\u5230\u76f8\u8ddd\u5f88\u8fdc\u7684\u4f4d\u7f6e\uff0c\u8fd9\u662f\u591a\u4f4d\u7f6e\u95ee\u9898\u3002\u5b83\u4eec\u53ef\u4ee5\u540c\u65f6\u53d1\u751f\uff0c\u4e5f\u53ef\u4ee5\u5206\u522b\u5b58\u5728\u3002\u53ea\u52a0\u5141\u8bb8\u91cd\u53e0\u7684\u9009\u9879\uff0c\u5e76\u4e0d\u4f1a\u81ea\u52a8\u63a5\u53d7\u591a\u4f4d\u7f6e\u6bd4\u5bf9\u3002<\/p>\n<p>\u672c\u6b21\u591a\u4f4d\u7f6e\u7247\u6bb5\u5206\u522b\u843d\u5728 A \u4e0e C\u3002\u9ed8\u8ba4\u6392\u9664\u540e\uff0c\u7edf\u8ba1\u8868\u4e2d\u6709\u4e24\u7ec4\u591a\u4f4d\u7f6e\u6bd4\u5bf9\u672a\u5206\u914d\u3002\u52a0\u5165 <code>-M -O --fraction<\/code> \u540e\uff0c\u4e24\u5904\u4f4d\u7f6e\u5206\u522b\u8d21\u732e\u534a\u4efd\uff0cA \u4ece\u4e8c\u589e\u52a0\u5230\u4e8c\u70b9\u4e94\uff0cC \u4ece\u4e00\u589e\u52a0\u5230\u4e00\u70b9\u4e94\u3002\u8fd9\u4e2a\u53d8\u5316\u53ef\u4ee5\u7531\u8f93\u5165\u4e2d\u7684\u4e24\u4e2a\u4f4d\u7f6e\u548c\u5bf9\u5e94\u6807\u7b7e\u76f4\u63a5\u89e3\u91ca\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\">featureCounts -T 2 -R CORE -t exon -g gene_id \\\r\n  -a genes.gtf -o fractional.txt \\\r\n  -p --countReadPairs -M -O --fraction input.sam\r\n<\/code><\/pre>\n<p>\u8fd9\u65f6\u7edf\u8ba1\u8868\u663e\u793a\u6210\u529f\u5206\u914d\u516d\u7ec4\uff0c\u800c\u4e09\u4e2a\u57fa\u56e0\u8ba1\u6570\u603b\u548c\u662f\u4e94\u3002\u539f\u6765\u6709\u516d\u4e2a\u72ec\u7acb\u7247\u6bb5\uff0c\u5176\u4e2d\u4e00\u4e2a\u6ca1\u6709\u843d\u5728\u6ce8\u91ca\u533a\u57df\uff0c\u6240\u4ee5\u6700\u7ec8\u603b\u8d21\u732e\u662f\u4e94\u4efd\u3002\u90a3\u4e2a\u591a\u4f4d\u7f6e\u7247\u6bb5\u5728\u7edf\u8ba1\u9636\u6bb5\u5bf9\u5e94\u4e24\u7ec4\u88ab\u63a5\u53d7\u7684\u6bd4\u5bf9\uff0c\u5728\u6743\u91cd\u9636\u6bb5\u603b\u5171\u8d21\u732e\u4e00\u4efd\u3002\u7406\u89e3\u8fd9\u4e00\u5c42\u5173\u7cfb\uff0c\u5c31\u4e0d\u4f1a\u628a\u7edf\u8ba1\u8868\u7684\u516d\u8bef\u8bfb\u4e3a\u516d\u4e2a\u72ec\u7acb\u5206\u5b50\u90fd\u88ab\u8ba1\u5165\u3002<\/p>\n<p>\u5206\u644a\u5f97\u5230\u7684\u5c0f\u6570\u4e5f\u4e0d\u4ee3\u8868\u6d4b\u5230\u4e86\u534a\u4e2a\u7269\u7406\u5206\u5b50\uff0c\u5b83\u662f\u5f52\u5c5e\u6743\u91cd\u3002\u8fd9\u4e2a\u89c4\u5219\u6ca1\u6709\u50cf\u8868\u8fbe\u6982\u7387\u6a21\u578b\u90a3\u6837\uff0c\u4f9d\u636e\u4e0d\u540c\u8f6c\u5f55\u672c\u7684\u4e30\u5ea6\u91cd\u65b0\u4f30\u8ba1\u6765\u6e90\u3002\u56e0\u6b64\uff0c\u4e0d\u80fd\u628a\u8fd9\u91cc\u7684\u7b49\u6743\u5206\u644a\u4e0e RSEM \u7684\u671f\u671b\u8ba1\u6570\u89c6\u4e3a\u540c\u4e00\u79cd\u63a8\u65ad\uff0c\u4e5f\u4e0d\u80fd\u4ec5\u56e0\u4e3a\u90fd\u51fa\u73b0\u5c0f\u6570\u5c31\u76f8\u4e92\u66ff\u6362\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u7b2c\u56db\u4e2a\u5bf9\u7167\uff0c\u8d1f\u94fe\u57fa\u56e0\u4e5f\u80fd\u7b26\u5408\u6b63\u5411\u6587\u5e93<\/h2>\n<p>\u94fe\u7279\u5f02\u53c2\u6570\u63cf\u8ff0\u7684\u662f\u8bfb\u6bb5\u4e0e\u8f6c\u5f55\u65b9\u5411\u7684\u5173\u7cfb\uff0c\u5e76\u4e0d\u662f\u201c\u53ea\u4fdd\u7559\u57fa\u56e0\u7ec4\u6b63\u94fe\u57fa\u56e0\u201d\u3002\u6211\u4eec\u4e13\u95e8\u653e\u5165\u8d1f\u94fe\u57fa\u56e0 C\uff0c\u5e76\u8ba9\u5176\u7b2c\u4e00\u7aef\u6cbf\u7740\u57fa\u56e0\u7684\u8f6c\u5f55\u65b9\u5411\u3002\u6b63\u5411\u94fe\u8bbe\u7f6e\u4e0b\uff0cA\u3001B\u3001C \u7684\u7247\u6bb5\u8ba1\u6570\u4ecd\u4e3a\u4e00\u3001\u4e00\u3001\u4e00\uff0c\u8d1f\u94fe\u57fa\u56e0\u5e76\u6ca1\u6709\u88ab\u6574\u4f53\u6392\u9664\u3002<\/p>\n<p>\u5c06\u53c2\u6570\u6539\u6210\u53cd\u5411\u94fe\u8bbe\u7f6e\u540e\uff0c\u4e09\u4e2a\u57fa\u56e0\u5168\u90e8\u4e3a\u96f6\u3002\u7edf\u8ba1\u8868\u628a\u539f\u672c\u53ef\u5f52\u5c5e\u6216\u91cd\u53e0\u7684\u7247\u6bb5\u8f6c\u4e3a\u6ca1\u6709\u7b26\u5408\u6761\u4ef6\u7684\u6ce8\u91ca\u533a\u57df\uff0c\u591a\u4f4d\u7f6e\u7247\u6bb5\u4ecd\u88ab\u5f52\u5165\u591a\u4f4d\u7f6e\u7c7b\u522b\u3002\u8fd9\u8bf4\u660e\u5206\u7c7b\u662f\u7ecf\u8fc7\u4e00\u7cfb\u5217\u89c4\u5219\u540e\u7684\u7ed3\u679c\uff0c\u4e0d\u80fd\u628a\u6bcf\u4e2a\u672a\u5206\u914d\u7c7b\u522b\u90fd\u5f53\u6210\u76f8\u4e92\u72ec\u7acb\u7684\u751f\u7269\u5b66\u539f\u56e0\u3002<\/p>\n<p>\u771f\u5b9e\u6587\u5e93\u7684\u94fe\u65b9\u5411\u5e94\u6765\u81ea\u5efa\u5e93\u65b9\u6848\u5e76\u7ed3\u5408\u4ee3\u8868\u6027\u6570\u636e\u6838\u9a8c\u3002\u4e0d\u80fd\u56e0\u4e3a\u67d0\u4e2a\u8bbe\u7f6e\u4fdd\u7559\u7387\u66f4\u9ad8\u5c31\u76f4\u63a5\u9009\u5b83\uff0c\u66f4\u4e0d\u80fd\u770b\u5230\u8d1f\u94fe\u57fa\u56e0\u8868\u8fbe\u5c11\uff0c\u5c31\u628a\u6240\u6709\u6837\u672c\u5f3a\u884c\u6362\u6210\u53e6\u4e00\u65b9\u5411\u3002\u5bf9\u7167\u5b9e\u9a8c\u53ea\u6709\u5728\u8f93\u5165\u3001\u6ce8\u91ca\u548c\u5176\u4ed6\u53c2\u6570\u90fd\u4e0d\u53d8\u65f6\uff0c\u624d\u80fd\u5e2e\u52a9\u5b9a\u4f4d\u65b9\u5411\u8bbe\u7f6e\u662f\u5426\u9519\u8bef\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u600e\u6837\u628a\u8fd9\u6b21\u7ec3\u4e60\u8fc1\u79fb\u5230\u771f\u5b9e\u9879\u76ee<\/h2>\n<p>\u9996\u5148\u5199\u6e05\u8ba1\u6570\u5355\u4f4d\uff0c\u518d\u56fa\u5b9a\u6ce8\u91ca\u7248\u672c\u548c\u57fa\u56e0\u6807\u8bc6\u89c4\u5219\u3002\u51c6\u5907\u8fdb\u5165\u6279\u91cf\u8ba1\u6570\u524d\uff0c\u5e94\u68c0\u67e5\u53c2\u8003\u5e8f\u5217\u540d\u79f0\u662f\u5426\u4e00\u81f4\uff0c\u5c24\u5176\u662f\u67d3\u8272\u4f53\u524d\u7f00\u3001\u7ebf\u7c92\u4f53\u547d\u540d\u548c\u9644\u52a0\u5e8f\u5217\u3002\u6bd4\u5bf9\u6587\u4ef6\u80fd\u6b63\u5e38\u6253\u5f00\uff0c\u5e76\u4e0d\u4fdd\u8bc1\u5b83\u4e0e\u6ce8\u91ca\u6765\u81ea\u540c\u4e00\u5957\u53c2\u8003\u3002\u5927\u91cf\u6ca1\u6709\u5bf9\u5e94\u533a\u57df\u7684\u8bfb\u6bb5\u53ef\u80fd\u6765\u81ea\u8fd9\u4e9b\u4e0d\u4e00\u81f4\uff0c\u4e5f\u53ef\u80fd\u6765\u81ea\u5185\u542b\u5b50\u3001\u672a\u6ce8\u91ca\u8f6c\u5f55\u6216\u6837\u672c\u672c\u8eab\uff0c\u4e0d\u80fd\u53ea\u51ed\u4e00\u4e2a\u6bd4\u4f8b\u4e0b\u7ed3\u8bba\u3002<\/p>\n<p>\u7136\u540e\u5206\u522b\u68c0\u67e5\u6bd4\u5bf9\u4f4d\u7f6e\u4e0e\u6ce8\u91ca\u5f52\u5c5e\u3002\u591a\u4f4d\u7f6e\u6bd4\u4f8b\u9ad8\uff0c\u9700\u8981\u770b\u91cd\u590d\u5e8f\u5217\u548c\u540c\u6e90\u57fa\u56e0\u60c5\u51b5\u3002\u6b67\u4e49\u6bd4\u4f8b\u9ad8\uff0c\u9700\u8981\u770b\u91cd\u53e0\u6ce8\u91ca\u548c\u8ba1\u6570\u5c42\u7ea7\u3002\u8bfb\u5bf9\u548c\u94fe\u8bbe\u7f6e\u9519\u8bef\u5219\u53ef\u80fd\u8ba9\u5927\u91cf\u672c\u6765\u5408\u7406\u7684\u7247\u6bb5\u5931\u53bb\u5f52\u5c5e\u3002\u8fd9\u51e0\u7c7b\u95ee\u9898\u5bf9\u5e94\u4e0d\u540c\u8bc1\u636e\uff0c\u7edf\u4e00\u91c7\u7528\u201c\u653e\u5bbd\u8fc7\u6ee4\u201d\u5bb9\u6613\u628a\u7ed3\u679c\u63a8\u5411\u65e0\u6cd5\u89e3\u91ca\u7684\u65b9\u5411\u3002<\/p>\n<p>\u6700\u540e\uff0c\u628a\u77e9\u9635\u3001\u5206\u7c7b\u7edf\u8ba1\u3001\u547d\u4ee4\u3001\u7248\u672c\u548c\u5c11\u91cf\u4ee3\u8868\u6027\u5f52\u5c5e\u8bb0\u5f55\u4e00\u8d77\u4fdd\u5b58\u3002\u8ba1\u6570\u77e9\u9635\u53ef\u4ee5\u8fdb\u5165\u540e\u7eed\u5206\u6790\uff0c\u4f46\u5c0f\u6570\u8ba1\u6570\u662f\u5426\u88ab\u4e0b\u6e38\u65b9\u6cd5\u63a5\u53d7\uff0c\u9700\u8981\u9075\u5faa\u8be5\u65b9\u6cd5\u7684\u8f93\u5165\u8981\u6c42\u3002\u4e0d\u80fd\u968f\u610f\u56db\u820d\u4e94\u5165\u540e\u5ba3\u79f0\u6062\u590d\u4e86\u771f\u5b9e\u6574\u6570\u8ba1\u6570\uff0c\u4e5f\u4e0d\u5e94\u628a\u5df2\u7ecf\u505a\u8fc7\u76f8\u5bf9\u4e30\u5ea6\u5f52\u4e00\u5316\u7684\u6570\u503c\u6df7\u5165\u539f\u59cb\u8ba1\u6570\u77e9\u9635\u3002\u4e0a\u4e0b\u6e38\u4e4b\u95f4\u6700\u91cd\u8981\u7684\u63a5\u53e3\uff0c\u662f\u6bcf\u4e00\u5217\u548c\u6bcf\u4e00\u4e2a\u6570\u7684\u7edf\u8ba1\u542b\u4e49\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u4f18\u70b9\u3001\u9650\u5236\u548c\u8fd9\u6b21\u5b9e\u8dd1\u7ecf\u9a8c<\/h2>\n<p>featureCounts 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style=\"color:#287e9c;text-decoration:underline;text-underline-offset:2px\" href=\"https:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2026\/11\/ysx-bioinformatics-practice-144-146-61b79d8bfe28.zip\">\u4e0b\u8f7d\u672c\u7ec4\u590d\u73b0\u811a\u672c\u548c\u5b9e\u9645\u8f93\u51fa<\/a>\u3002\u8fdb\u4e00\u6b65\u6838\u5bf9\u53c2\u6570\u53ef\u9605\u8bfb <a style=\"color:#287e9c;text-decoration:underline;text-underline-offset:2px\" href=\"https:\/\/subread.sourceforge.net\/SubreadUsersGuide.pdf\">Subread \u5b98\u65b9\u7528\u6237\u624b\u518c<\/a>\uff0c\u65b9\u6cd5\u80cc\u666f\u89c1 <a style=\"color:#287e9c;text-decoration:underline;text-underline-offset:2px\" href=\"https:\/\/doi.org\/10.1093\/bioinformatics\/btt656\">featureCounts \u539f\u59cb\u8bba\u6587<\/a>\u3002<\/p>\n<p class=\"guide-end\" style=\"margin-top:1.6em;padding-top:1.0em;border-top:1px solid 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