{"id":30223,"date":"2024-02-28T18:12:40","date_gmt":"2024-02-28T10:12:40","guid":{"rendered":"http:\/\/www.biocloudservice.com\/wordpress\/?p=30223"},"modified":"2024-02-28T18:12:42","modified_gmt":"2024-02-28T10:12:42","slug":"%e5%b0%8f%e6%9e%9c%e6%89%8b%e6%8a%8a%e6%89%8b%e6%95%99%e4%bd%a0%e7%94%a8miniconda%e5%ae%89%e8%a3%85edta%ef%bc%88%e4%b8%8b%ef%bc%89","status":"publish","type":"post","link":"http:\/\/www.biocloudservice.com\/wordpress\/?p=30223","title":{"rendered":"\u5c0f\u679c\u624b\u628a\u624b\u6559\u4f60\u7528miniconda\u5b89\u88c5EDTA\uff08\u4e0b\uff09"},"content":{"rendered":"<p>\u5c0f\u679c\u624b\u628a\u624b\u6559\u4f60\u7528miniconda\u5b89\u88c5EDTA\uff08\u4e0b\uff09<\/p>\n<p>\u4e66\u63a5\u4e0a\u56de\uff0c\u6211\u4eec\u5df2\u7ecf\u5b89\u88c5\u597dminiconda\uff0c\u73b0\u5728\u8be5\u5b89\u88c5EDTA\u4e86\u3002 \u5c0f\u679c\u5b89\u88c5\u7684\u65f6\u5019\u4e00\u5f00\u59cb\u8d70\u4e86\u4e0d\u5c11\u5f2f\u8def\uff0c\u6bd4\u5982\u8bf4\u8bd5\u56fe\u901a\u8fc7\u4ee5\u4e0b\u4ee3\u7801\u6765\u5b89\u88c5EDTA<\/p>\n<p>#\u521b\u5efa\u4e00\u4e2a\u65b0\u7684conda\u73af\u5883\uff0c\u5e76\u6307\u5b9apython\u7248\u672c<\/p>\n<p>conda create -n bioinfo python=3.9<\/p>\n<p># \u6fc0\u6d3b\u8fd9\u4e2a\u73af\u5883<\/p>\n<p>conda activate bioinfo<\/p>\n<p>#\u5728bioconda channel\u4e0b\u8f7dedta\u8f6f\u4ef6\u5305<\/p>\n<p>conda install -c bioconda edta<\/p>\n<p>\u7ed3\u679c\u603b\u662f\u62a5\u9519\uff01\u6bcf\u6b21\u5b89\u88c5\u65b0\u8f6f\u4ef6\u90fd\u89c9\u5f97\u81ea\u5df1\u662f\u5446\u74dc\u7684\u5c0f\u679c\u7814\u7a76\u4e86\u534a\u5929\uff0c\u8ba4\u4e3a\u5e94\u8be5\u662f\u73af\u5883\u4f9d\u8d56\u51fa\u4e86\u95ee\u9898\uff0c\u4f46\u4e0d\u4f1a\u89e3\u51b3\uff0c\u641c\u5bfb\u7f51\u7edc\u5404\u79cd\u6559\u7a0b\u540e\u679c\u65ad\u5220\u6389\u4e86\u521a\u521a\u521b\u5efa\u7684\u73af\u5883\uff0c\u4f7f\u7528\u4e86\u53e6\u4e00\u79cd\u5b89\u88c5\u65b9\u5f0f\uff08<a href=\"https:\/\/blog.csdn.net\/weixin_52589039\/article\/details\/122331967\">(11\u6761\u6d88\u606f) EDTA \u6700\u7b80\u6613\u5b89\u88c5\u65b9\u6cd5_tesorter_Plaichat-123\u7684\u535a\u5ba2-CSDN\u535a\u5ba2<\/a>\uff09\uff0c\u5f88\u5feb\u6210\u529f\u4e86\uff0c\u611f\u8c22\u6765\u81eaCSDN\u7684\u9988\u8d60~<\/p>\n<p>conda remove &#8211;name bioinfo \u2013all#\u5220\u9664\u540d\u4e3abioinfo\u7684\u73af\u5883<\/p>\n<p><img decoding=\"async\" loading=\"lazy\" width=\"637\" height=\"233\" class=\"wp-image-30224\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-1.png?resize=637%2C233\" srcset=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-1.png?w=637 637w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-1.png?resize=300%2C110 300w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-1.png?resize=600%2C219 600w\" sizes=\"(max-width: 637px) 100vw, 637px\" data-recalc-dims=\"1\" \/><\/p>\n<p>git clone https:\/\/github.com\/oushujun\/EDTA#\u5728github\u4e0a\u514b\u9686\uff08\u4e0b\u8f7d\uff09EDTA\u9879\u76ee<\/p>\n<p><img decoding=\"async\" loading=\"lazy\" width=\"640\" height=\"114\" class=\"wp-image-30225\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-2.png?resize=640%2C114\" srcset=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-2.png?w=731 731w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-2.png?resize=300%2C53 300w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-2.png?resize=600%2C107 600w\" sizes=\"(max-width: 640px) 100vw, 640px\" data-recalc-dims=\"1\" \/><\/p>\n<p>\u6ca1\u6709git\uff1f\u88c5\uff01<\/p>\n<p>sudo apt install git<\/p>\n<p>\u88c5\u5b8cgit\u4ee5\u540e\u518d\u6b21\u6267\u884c<\/p>\n<p>git clone https:\/\/github.com\/oushujun\/EDTA<\/p>\n<p><img decoding=\"async\" loading=\"lazy\" width=\"640\" height=\"142\" class=\"wp-image-30226\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-3.png?resize=640%2C142\" srcset=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-3.png?w=728 728w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-3.png?resize=300%2C67 300w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-3.png?resize=600%2C134 600w\" sizes=\"(max-width: 640px) 100vw, 640px\" data-recalc-dims=\"1\" \/><\/p>\n<p>\u88c5\u597d\u4e86\uff01\u4f7f\u7528EDTA.yml\u7ee7\u7eed\u521b\u5efa\u547d\u540d\u4e3aEDTA\u7684conda\u73af\u5883\u3002<\/p>\n<p>conda env create -f EDTA.yml<\/p>\n<p><img decoding=\"async\" loading=\"lazy\" width=\"640\" height=\"246\" class=\"wp-image-30227\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-4.png?resize=640%2C246\" srcset=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-4.png?w=721 721w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-4.png?resize=300%2C115 300w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30223-4.png?resize=600%2C231 600w\" sizes=\"(max-width: 640px) 100vw, 640px\" data-recalc-dims=\"1\" \/><\/p>\n<p>conda info \u2013envs#\u67e5\u770b\u5df2\u5b89\u88c5\u7684\u73af\u5883<\/p>\n<p>conda activate EDTA#\u6fc0\u6d3bEDTA<\/p>\n<p>conda create &#8211;name repeatmasker repeatmasker<\/p>\n<p>#\u521b\u5efa\u65b0\u7684\u73af\u5883\u5e76\u5b89\u88c5RepeatMasker<\/p>\n<p>conda install -c bioconda samtools#\u901a\u8fc7bioconda\u5b89\u88c5samtools<\/p>\n<p>\u7136\u540e\u6211\u4eec\u5c31\u53ef\u4ee5\u6ce8\u91ca\u57fa\u56e0\u7ec4\u4e2d\u7684\u91cd\u590d\u5e8f\u5217\u4e86\uff0c\u5927\u6982\u6d41\u7a0b\u5982\u4e0b\u6240\u793a\uff1a<\/p>\n<ol>\n<li>\u4e0b\u8f7d\u4e86\u5c0f\u9f20\u7684\u5168\u57fa\u56e0\u7ec4\u5e8f\u5217\u6587\u4ef6\uff08.fasta\uff09<\/li>\n<li>\u4e0b\u8f7d\u5c0f\u9f20\u7684CDS\u5e8f\u5217\u6587\u4ef6\uff08\u53ef\u4ee5\u5728gencode\u4e0b\u8f7d\uff09<\/li>\n<li>\u6784\u5efa\u5c0f\u9f20\u7684repeat library<\/li>\n<li>\u5bf9\u5c0f\u9f20\u5168\u57fa\u56e0\u7ec4\u5e8f\u5217\u8fdb\u884c\u91cd\u590d\u5e8f\u5217\u6ce8\u91ca\uff08\u7528\u5230\u4e86RepeatMasker\uff09<\/li>\n<li>\u7edf\u8ba1\u6ce8\u91ca\u7ed3\u679c<\/li>\n<\/ol>\n<p>\u5c0f\u679c\u4e0b\u671f\u5206\u6790\u8be6\u7ec6\u7684\u6ce8\u91ca\u6559\u7a0b\u54e6\uff01\u4e0d\u8981\u9519\u8fc7~<\/p>\n<p>\u6b22\u8fce\u4f7f\u7528\uff1a<a href=\"http:\/\/www.biocloudservice.com\/home.html\">\u4e91\u751f\u4fe1 \u00a0&#8211; \u5b66\u751f\u7269\u4fe1\u606f\u5b66 (biocloudservice.com)<\/a><\/p>\n<p>\u5982\u679c\u60f3\u7528\u670d\u52a1\u5668\u53ef\u4ee5\u8054\u7cfb\u5fae\u4fe1\uff1a18502195490<\/p>\n","protected":false},"excerpt":{"rendered":"<p>\u5c0f\u679c\u624b\u628a\u624b\u6559\u4f60\u7528miniconda\u5b89\u88c5EDTA\uff08\u4e0b\uff09 \u4e66\u63a5\u4e0a\u56de\uff0c\u6211\u4eec\u5df2\u7ecf\u5b89\u88c5\u597dminiconda\uff0c\u73b0\u5728\u8be5\u5b89\u88c5E [&hellip;]<\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"jetpack_post_was_ever_published":false,"_jetpack_newsletter_access":""},"categories":[1],"tags":[],"jetpack_featured_media_url":"","_links":{"self":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/30223"}],"collection":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=30223"}],"version-history":[{"count":1,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/30223\/revisions"}],"predecessor-version":[{"id":30228,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/30223\/revisions\/30228"}],"wp:attachment":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=30223"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=30223"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=30223"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}