{"id":41632,"date":"2025-06-04T01:11:10","date_gmt":"2025-06-03T17:11:10","guid":{"rendered":"https:\/\/www.wsisp.com\/helps\/41632.html"},"modified":"2025-06-04T01:11:10","modified_gmt":"2025-06-03T17:11:10","slug":"%e7%94%9f%e4%bf%a1%e6%9c%8d%e5%8a%a1%e5%99%a8%e5%a6%82%e4%bd%95%e5%ae%89%e8%a3%85cellranger%ef%bd%9c%e7%94%9f%e4%bf%a1%e6%9c%8d%e5%8a%a1%e5%99%a8%e5%ae%89%e8%a3%85%e8%bd%af%e4%bb%b6%ef%bd%9c%e5%8d%95","status":"publish","type":"post","link":"https:\/\/www.wsisp.com\/helps\/41632.html","title":{"rendered":"\u751f\u4fe1\u670d\u52a1\u5668\u5982\u4f55\u5b89\u88c5cellranger\uff5c\u751f\u4fe1\u670d\u52a1\u5668\u5b89\u88c5\u8f6f\u4ef6\uff5c\u5355\u7ec6\u80de\u6d4b\u5e8f\u8f6f\u4ef6\u5b89\u88c5"},"content":{"rendered":"<p id=\"u583d844d\">\n<p class=\"img-center\"><img loading=\"lazy\" decoding=\"async\" alt=\"\" height=\"586\" id=\"u7bd27744\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2025\/06\/20250603171057-683f2ca11bd3d.png\" width=\"2204\" \/><\/p>\n<h3 id=\"S1zzu\">\u4e00.Why cellranger<\/h3>\n<p id=\"u6f867e94\">Cell Ranger \u662f\u7531 10x Genomics \u516c\u53f8\u5f00\u53d1\u7684\u4e00\u6b3e\u7528\u4e8e\u5904\u7406\u5176\u5355\u7ec6\u80de\u6d4b\u5e8f&#xff08;single-cell RNA-seq, scRNA-seq&#xff09;\u6570\u636e\u7684\u8f6f\u4ef6\u5957\u4ef6\u3002\u5b83\u4e3b\u8981\u7528\u4e8e\u5c06\u539f\u59cb\u6d4b\u5e8f\u6570\u636e&#xff08;fastq \u6587\u4ef6&#xff09;\u8f6c\u6362\u4e3a\u53ef\u4ee5\u7528\u4e8e\u4e0b\u6e38\u5206\u6790\u7684\u683c\u5f0f&#xff0c;\u6bd4\u5982\u57fa\u56e0\u8868\u8fbe\u77e9\u9635\u7b49\u3002<\/p>\n<p>\u8bbf\u95ee\u3010\u751f\u4fe1\u5706\u684c\u3011www.tebteb.cc\u00a0 &#xff5c; \u4e86\u89e3&#xff0c;\u83b7\u53d6\u751f\u4fe1\u4e91&#xff1b;\u751f\u4fe1\u66f4\u7701\u5fc3<\/p>\n<p id=\"ue20a6989\">\n<h3 id=\"8d257c0a\">\u4e8c\u3001Cell Ranger \u80fd\u505a\u4ec0\u4e48&#xff1f;<\/h3>\n<h5 id=\"AtUvu\">1. mkfastq<\/h5>\n<p id=\"u626a2975\">\u5c06 Illumina BCL \u6587\u4ef6\u8f6c\u6362\u4e3a FASTQ \u683c\u5f0f&#xff08;\u8c03\u7528 bcl2fastq&#xff09;<\/p>\n<h5 id=\"mOA6u\">2. count<\/h5>\n<p id=\"u71ed0417\">\u8fd9\u662f\u6700\u6838\u5fc3\u7684\u6a21\u5757&#xff1a;\u5c06 FASTQ \u6570\u636e \u2192 \u8868\u8fbe\u77e9\u9635<\/p>\n<p id=\"u8ab79351\">\u5305\u62ec&#xff1a;<\/p>\n<ul>\n<li>\n<ul>\n<li id=\"u35712668\">demultiplex&#xff08;\u8bc6\u522b barcode&#xff09;<\/li>\n<li id=\"uff8712a3\">\u53bb\u9664 PCR duplication&#xff08;\u7528 UMI&#xff09;<\/li>\n<li id=\"u9bdccd44\">\u6bd4\u5bf9&#xff08;\u7528 STAR&#xff09;<\/li>\n<li id=\"ufe063350\">\u5b9a\u91cf\u5206\u6790&#xff0c;\u8f93\u51fa\u8868\u8fbe\u77e9\u9635\u548c QC \u62a5\u544a<\/li>\n<\/ul>\n<\/li>\n<\/ul>\n<h5 id=\"ftikc\">3. aggr<\/h5>\n<p id=\"u0b545b12\">\u805a\u5408\u591a\u4e2a\u6837\u672c&#xff08;library&#xff09;\u5206\u6790\u7ed3\u679c&#xff0c;\u7528\u4e8e\u6574\u5408\u591a\u4e2a\u6570\u636e\u96c6&#xff0c;\u7edf\u4e00\u5206\u6790<\/p>\n<h5 id=\"xmSrA\">4. reanalyze<\/h5>\n<p id=\"u827abf72\">\u7528\u4e8e\u5bf9 count \u7ed3\u679c\u518d\u6b21\u964d\u7ef4\u548c\u805a\u7c7b&#xff08;\u4e0d\u91cd\u65b0\u6bd4\u5bf9&#xff09;<\/p>\n<h5 id=\"yVuoT\">5. vdj<\/h5>\n<p id=\"u0d782476\">\u5206\u6790 TCR\/BCR \u91cd\u6392&#xff08;\u5982\u679c\u662f\u514d\u75ab\u76f8\u5173\u6d4b\u5e8f&#xff09;<\/p>\n<p id=\"u59d4216c\">\n<h3 id=\"yWX32\">\u4e09.\u5982\u4f55\u5b89\u88c5cellranger<\/h3>\n<p id=\"u6bae7250\">\u8ba1\u7b97\u673a\u914d\u7f6e\u8981\u6c42&#xff1a;\u672c\u6559\u7a0b\u4f7f\u7528ubuntu\u7cfb\u7edf\u6f14\u793a<\/p>\n<table id=\"aTk2j\">\n<tbody>\n<tr>\n<td>\n<p id=\"u17667e8b\">CPU<\/p>\n<\/td>\n<td>\n<p id=\"uc6fca280\">\u81f3\u5c11 8 \u6838&#xff0c;\u63a8\u8350 16 \u6838\u4ee5\u4e0a<\/p>\n<\/td>\n<\/tr>\n<tr>\n<td>\n<p id=\"ud6b77c10\">\u5185\u5b58<\/p>\n<\/td>\n<td>\n<p id=\"u862651b8\">\u81f3\u5c11 64 GB&#xff0c;\u63a8\u8350 128 GB<\/p>\n<\/td>\n<\/tr>\n<tr>\n<td>\n<p id=\"u932ad647\">\u786c\u76d8<\/p>\n<\/td>\n<td>\n<p id=\"u5db0b139\">\u6bcf\u4e2a\u6837\u672c\u53ef\u80fd\u9700\u8981 100 GB \u7a7a\u95f4&#xff08;\u4e2d\u95f4\u6587\u4ef6\u5f88\u591a&#xff09;<\/p>\n<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<p id=\"ud3b7901b\">\n<p id=\"u2deac464\">\u3010\u6b65\u9aa41\u3011\u9996\u5148\u4f60\u9700\u8981\u901a\u8fc7finalshell\u767b\u5f55\u670d\u52a1\u5668<\/p>\n<p id=\"u4659ad96\">\n<p class=\"img-center\"><img loading=\"lazy\" decoding=\"async\" alt=\"\" height=\"1790\" id=\"u7e394746\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2025\/06\/20250603171057-683f2ca1d8aef.png\" width=\"2670\" \/><\/p>\n<p id=\"ua7d0801d\">\n<p id=\"u9bfa07b6\">\u3010\u6b65\u9aa42\u3011\u901a\u8fc7 10xgenomics \u5b98\u7f51 \u627e\u5230\u8f6f\u4ef6 Cell Ranger<\/p>\n<p id=\"ua39789a6\">www.10xgenomics.com\/software<\/p>\n<p id=\"u0a06ec26\">\n<p class=\"img-center\"><img loading=\"lazy\" decoding=\"async\" alt=\"\" height=\"2022\" id=\"uda2b68d6\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2025\/06\/20250603171101-683f2ca5d3b3c.png\" width=\"3124\" \/><\/p>\n<p id=\"u4fd2b72e\">\n<p id=\"ufb963520\">\u3010\u6b65\u9aa43\u3011\u590d\u5236\u5b89\u88c5\u4ee3\u7801<\/p>\n<p id=\"ucdef8de9\">\n<p class=\"img-center\"><img loading=\"lazy\" decoding=\"async\" alt=\"\" height=\"2022\" id=\"u69a80c47\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2025\/06\/20250603171104-683f2ca8d02c5.png\" width=\"3124\" \/><\/p>\n<p id=\"ufa2489e3\">\u7136\u540e\u590d\u5236\u5b89\u88c5\u547d\u4ee4\u7c98\u8d34\u5230 finalshell\u63a7\u5236\u53f0<\/p>\n<p id=\"u4fbd75ea\">\n<p class=\"img-center\"><img loading=\"lazy\" decoding=\"async\" alt=\"\" height=\"398\" id=\"u89f9a7b6\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2025\/06\/20250603171107-683f2cabb3f60.png\" width=\"1672\" \/><\/p>\n<p id=\"u36ee7fad\">\u5f02\u5e38\u60c5\u51b51<\/p>\n<p id=\"u4015ab94\">\n<p class=\"img-center\"><img loading=\"lazy\" decoding=\"async\" alt=\"\" height=\"162\" id=\"ue76d13a9\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2025\/06\/20250603171108-683f2cac01347.png\" width=\"2176\" \/><\/p>\n<p id=\"ub592cf96\">\u8bf7\u5207\u6362\u5230wget\u547d\u4ee4<\/p>\n<p id=\"u84e96d7d\">\n<p class=\"img-center\"><img loading=\"lazy\" decoding=\"async\" alt=\"\" height=\"360\" id=\"u7b4f3f04\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2025\/06\/20250603171108-683f2cac56635.png\" width=\"1524\" \/><\/p>\n<p id=\"u024162b4\">\u5f02\u5e38\u60c5\u51b52<\/p>\n<p id=\"u475bcfbf\">\n<p class=\"img-center\"><img loading=\"lazy\" decoding=\"async\" alt=\"\" height=\"222\" id=\"u3ea9faaa\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2025\/06\/20250603171108-683f2cac7d09d.png\" width=\"2136\" \/><\/p>\n<p id=\"u25b721ae\">\u7f51\u7edc\u5361\u4f4f\u6ca1\u6709\u8fdb\u5ea6\u6761&#xff1f; \u8bf7\u7528control&#043;c \u952ekill \u91cd\u8bd5<\/p>\n<p id=\"u60ff5aec\">\n<p id=\"uc4ff35fd\">\u3010\u6b65\u9aa44\u3011\u4e0b\u8f7d\u5b8c\u6210\u540e\u4f9d\u6b21\u6267\u884c<\/p>\n<p>## \u89e3\u538b\u8f6f\u4ef6\u5b89\u88c5\u5305<br \/>\ntar -xzvf cellranger-9.0.1.tar.gz<\/p>\n<p>## \u79fb\u52a8\u5230\u6307\u5b9a\u76ee\u5f55<br \/>\nsudo mv cellranger-9.0.1 \/opt\/ <\/p>\n<p id=\"u61986280\">\n<p id=\"uc3f71d22\">\u3010\u6b65\u9aa4\u4e94\u3011\u73af\u5883\u53d8\u91cf&#xff08;\u8bf7\u5b8c\u6574\u590d\u5236 \u4e0d\u8981\u4fee\u6539\u3010\u5982\u679c\u4f60\u7248\u672c\u53f7\u8c03\u6574\u81ea\u884c\u4fee\u6539\u3011&#xff09;<\/p>\n<p>echo &#039;export PATH&#061;\/opt\/cellranger-9.0.1:$PATH&#039; &gt;&gt; ~\/.bashrc<br \/>\nsource ~\/.bashrc <\/p>\n<p id=\"udd0508e2\">\n<p id=\"u1e863cf4\">\u6d4b\u8bd5\u662f\u5426\u5b89\u88c5\u6210\u529f<\/p>\n<p>cellranger &#8211;version <\/p>\n<p id=\"u89575994\">\u5982\u679c\u8f93\u51fa\u4e86 cellranger 9.0.1&#xff0c;\u8bf4\u660e\u5b89\u88c5\u6210\u529f\u3002<\/p>\n<p id=\"u9045f30d\">\n<p id=\"u68abaf89\">\u8f6f\u4ef6\u4f7f\u7528\u6a21\u7248\u3010\u6d4b\u8bd5\u5206\u6790\u6d41\u7a0b\u3011\u81ea\u884c\u8c03\u6574<\/p>\n<p>cellranger count &#8211;id&#061;sample1 \\\\<br \/>\n                 &#8211;transcriptome&#061;\/path\/to\/refdata-gex-GRCh38-2020-A \\\\<br \/>\n                 &#8211;fastqs&#061;\/path\/to\/fastqs \\\\<br \/>\n                 &#8211;sample&#061;sample1 <\/p>\n<p id=\"ub5f6fdf2\">\n<h3 id=\"g07vQ\">\u7ed3\u675f<\/h3>\n<p>\u8bbf\u95ee\u3010\u751f\u4fe1\u5706\u684c\u3011www.tebteb.cc\u00a0 &#xff5c; \u4e86\u89e3&#xff0c;\u83b7\u53d6\u751f\u4fe1\u4e91&#xff1b;\u751f\u4fe1\u66f4\u7701\u5fc3<\/p>\n<p id=\"u3210f062\">\n<p class=\"img-center\"><img loading=\"lazy\" decoding=\"async\" alt=\"\" height=\"688\" id=\"uea7aad29\" src=\"https:\/\/www.wsisp.com\/helps\/wp-content\/uploads\/2025\/06\/20250603171108-683f2cacec0b7.png\" width=\"1960\" \/><\/p>\n<p id=\"u1a45f65c\">\n","protected":false},"excerpt":{"rendered":"<p>\u6587\u7ae0\u6d4f\u89c8\u9605\u8bfb1k\u6b21\uff0c\u70b9\u8d5e14\u6b21\uff0c\u6536\u85cf18\u6b21\u3002Cell Ranger \u662f\u7531 10x Genomics \u516c\u53f8\u5f00\u53d1\u7684\u4e00\u6b3e\u7528\u4e8e\u5904\u7406\u5176\u5355\u7ec6\u80de\u6d4b\u5e8f\uff08single-cell RNA-seq, scRNA-seq\uff09\u6570\u636e\u7684\u8f6f\u4ef6\u5957\u4ef6\u3002\u5b83\u4e3b\u8981\u7528\u4e8e\u5c06\u539f\u59cb\u6d4b\u5e8f\u6570\u636e\uff08fastq \u6587\u4ef6\uff09\u8f6c\u6362\u4e3a\u53ef\u4ee5\u7528\u4e8e\u4e0b\u6e38\u5206\u6790\u7684\u683c\u5f0f\uff0c\u6bd4\u5982\u57fa\u56e0\u8868\u8fbe\u77e9\u9635\u7b49\u3002_cellranger<\/p>\n","protected":false},"author":2,"featured_media":41623,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[1],"tags":[43,44],"topic":[],"class_list":["post-41632","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-server","tag-43","tag-44"],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v20.3 - https:\/\/yoast.com\/wordpress\/plugins\/seo\/ -->\n<title>\u751f\u4fe1\u670d\u52a1\u5668\u5982\u4f55\u5b89\u88c5cellranger\uff5c\u751f\u4fe1\u670d\u52a1\u5668\u5b89\u88c5\u8f6f\u4ef6\uff5c\u5355\u7ec6\u80de\u6d4b\u5e8f\u8f6f\u4ef6\u5b89\u88c5 - \u7f51\u7855\u4e92\u8054\u5e2e\u52a9\u4e2d\u5fc3<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/www.wsisp.com\/helps\/41632.html\" \/>\n<meta property=\"og:locale\" content=\"zh_CN\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"\u751f\u4fe1\u670d\u52a1\u5668\u5982\u4f55\u5b89\u88c5cellranger\uff5c\u751f\u4fe1\u670d\u52a1\u5668\u5b89\u88c5\u8f6f\u4ef6\uff5c\u5355\u7ec6\u80de\u6d4b\u5e8f\u8f6f\u4ef6\u5b89\u88c5 - \u7f51\u7855\u4e92\u8054\u5e2e\u52a9\u4e2d\u5fc3\" \/>\n<meta property=\"og:description\" content=\"\u6587\u7ae0\u6d4f\u89c8\u9605\u8bfb1k\u6b21\uff0c\u70b9\u8d5e14\u6b21\uff0c\u6536\u85cf18\u6b21\u3002Cell Ranger \u662f\u7531 10x Genomics \u516c\u53f8\u5f00\u53d1\u7684\u4e00\u6b3e\u7528\u4e8e\u5904\u7406\u5176\u5355\u7ec6\u80de\u6d4b\u5e8f\uff08single-cell RNA-seq, scRNA-seq\uff09\u6570\u636e\u7684\u8f6f\u4ef6\u5957\u4ef6\u3002\u5b83\u4e3b\u8981\u7528\u4e8e\u5c06\u539f\u59cb\u6d4b\u5e8f\u6570\u636e\uff08fastq 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