{"id":30336,"date":"2024-02-29T14:52:00","date_gmt":"2024-02-29T06:52:00","guid":{"rendered":"http:\/\/www.biocloudservice.com\/wordpress\/?p=30336"},"modified":"2024-02-29T14:52:02","modified_gmt":"2024-02-29T06:52:02","slug":"%e6%8e%8c%e6%8f%a1cmplot%ef%bc%9a%e4%bd%bf%e7%94%a8r%e8%bd%bb%e6%9d%be%e5%88%9b%e5%bb%ba%e7%b2%be%e7%be%8esnp%e5%af%86%e5%ba%a6%e5%9b%be","status":"publish","type":"post","link":"http:\/\/www.biocloudservice.com\/wordpress\/?p=30336","title":{"rendered":"\u638c\u63e1CMplot\uff1a\u4f7f\u7528R\u8f7b\u677e\u521b\u5efa\u7cbe\u7f8eSNP\u5bc6\u5ea6\u56fe"},"content":{"rendered":"<p><strong>\u638c\u63e1CMplot\uff1a\u4f7f\u7528R\u8f7b\u677e\u521b\u5efa\u7cbe\u7f8eSNP\u5bc6\u5ea6\u56fe <\/strong><\/p>\n<p>\u4f60\u77e5\u9053\u600e\u4e48\u53ef\u89c6\u5316\u57fa\u56e0\u7ec4\u7684\u67d3\u8272\u4f53\u4e0a\u57fa\u56e0\u7684\u5bc6\u5ea6\u5206\u5e03\u72b6\u51b5\u5417?\u8fd9\u4e2a\u56fe\u8981\u6c42\u4f60\u6b63\u786e\u5c55\u793a\u67d3\u8272\u4f53\u4e0a\u57fa\u56e0\u4f4d\u70b9\u5bc6\u5ea6\u7684\u5206\u5e03\u4fe1\u606f\uff0c\u4eca\u5929\u5c0f\u679c\u5c31\u6765\u7ed9\u5927\u5bb6\u79d1\u666e\u4e00\u4e2a\u7b80\u5355\u53c8\u597d\u7528\u7684R\u5305\uff0c\u8ba9\u4f60\u8f7b\u677e\u7ed8\u5236\u7f8e\u89c2\u7684SNP\u5bc6\u5ea6\u56fe\uff0c\u90a3\u4e48\u5c31\u548c\u5c0f\u679c\u4e00\u8d77\u6765\u770b\u4e00\u4e0b\u5427\uff01<\/p>\n<p>\u672c\u6559\u7a0b\u5c06\u4ecb\u7ecd\u5982\u4f55\u51c6\u5907\u6570\u636e\u3001\u5b89\u88c5CMplot\u5305\u3001\u521b\u5efa\u67d3\u8272\u4f53\u5730\u56fe\u4ee5\u53ca\u5982\u4f55\u81ea\u5b9a\u4e49\u53ef\u89c6\u5316\u53c2\u6570\u3002<\/p>\n<p><strong>\u51c6\u5907\u6570\u636e<\/strong><\/p>\n<p>\u5728\u4f7f\u7528CMplot\u5305\u4e4b\u524d\uff0c\u9700\u8981\u51c6\u5907\u597d\u67d3\u8272\u4f53\u6570\u636e\u3002\u6570\u636e\u5e94\u5305\u62ec\u4ee5\u4e0b\u6563\u5217\u4fe1\u606f\uff1a<\/p>\n<ul>\n<li>SNP\u4f4d\u70b9\u540d\u79f0\uff08\u53ef\u81ea\u5b9a\u4e49\uff09\uff1b<\/li>\n<li>\u67d3\u8272\u4f53\u53f7\/\u67d3\u8272\u4f53\u540d\u79f0\uff1a\u8fd9\u4e2a\u6307\u7684\u662fSNP\u4f4d\u70b9\u5bf9\u5e94\u7684\u67d3\u8272\u4f53\u662f\u54ea\u4e00\u6761\u54e6\uff1b<\/li>\n<li>SNP\u4f4d\u7f6e\u4fe1\u606f\uff1a\u6bcf\u4e2aSNP\u4f4d\u70b9\u5728\u67d3\u8272\u4f53\u4e0a\u7684\u4f4d\u7f6e\uff0c\u901a\u5e38\u4f7f\u7528\u57fa\u56e0\u7ec4\u5750\u6807\u8868\u793a\u3002<\/li>\n<\/ul>\n<p>\u8fd9\u4e9b\u6570\u636e\u901a\u5e38\u4ee5\u6587\u672c\u6587\u4ef6\u7684\u5f62\u5f0f\u5b58\u50a8\u3002\u6587\u4ef6\u5e94\u5305\u542b\u6807\u9898\u884c\uff0c\u5217\u6807\u9898\u5e94\u6807\u8bc6\u4f4d\u7f6e\u548c\u503c\u6570\u636e\u5217\uff0c\u4ee5\u4fbfCMplot\u5305\u6b63\u786e\u89e3\u91ca\u6570\u636e\u3002\u63a5\u4e0b\u6765\u5c0f\u679c\u7ed9\u5927\u5bb6\u5c55\u793a\u4e00\u4e0b\u51c6\u5907\u597d\u7684\u6570\u636e\u957f\u4ec0\u4e48\u6837\u5427\uff01<\/p>\n<p><img decoding=\"async\" loading=\"lazy\" width=\"504\" height=\"1031\" class=\"wp-image-30337\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30336-1.png?resize=504%2C1031\" srcset=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30336-1.png?w=504 504w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30336-1.png?resize=147%2C300 147w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/word-image-30336-1.png?resize=501%2C1024 501w\" sizes=\"(max-width: 504px) 100vw, 504px\" data-recalc-dims=\"1\" \/><\/p>\n<p><strong>\u5b89\u88c5CMplot\u5305<\/strong><\/p>\n<p>\u5728\u5f00\u59cb\u4f7f\u7528CMplot\u5305\u4e4b\u524d\uff0c\u9700\u8981\u5148\u5b89\u88c5\u8be5\u5305\u3002\u60a8\u53ef\u4ee5\u901a\u8fc7\u8fd0\u884c\u4ee5\u4e0b\u547d\u4ee4\u6765\u5b89\u88c5CMplot\u5305\uff1a<\/p>\n<p>install.packages(&#8220;CMplot&#8221;)<\/p>\n<p>\u8bf7\u6ce8\u610f\uff0c\u60a8\u9700\u8981\u786e\u4fdd\u60a8\u7684\u8ba1\u7b97\u673a\u5df2\u8fde\u63a5\u5230Internet\uff0c\u4ee5\u4fbf\u4eceCRAN\u4e0b\u8f7d\u548c\u5b89\u88c5\u8be5\u5305\u54e6\uff01<\/p>\n<p><strong>\u521b\u5efa\u67d3\u8272\u4f53SNP\u5bc6\u5ea6\u56fe<\/strong><\/p>\n<p>\u5728\u5b89\u88c5\u4e86CMplot\u5305\u4e4b\u540e\uff0c\u5c31\u53ef\u4ee5\u4f7f\u7528\u8be5\u5305\u4e2d\u7684CMplot()\u51fd\u6570\u521b\u5efa\u67d3\u8272\u4f53\u5730\u56fe\u3002\u4e0b\u9762\u662f\u4e00\u4e2a\u793a\u4f8b\u4ee3\u7801\uff1a<\/p>\n<p>library(CMplot) #\u5bfc\u5165CMplot\u5305<br \/>\nmydata &lt;- read.table(&#8220;SNP-new-old.txt&#8221;, header = TRUE, sep = &#8220;\\t&#8221;)<br \/>\nCMplot(mydata, plot.type = &#8220;d&#8221;, bin.size = 1e3, col = c(&#8220;darkgreen&#8221;, &#8220;yellow&#8221;, &#8220;red&#8221;))<\/p>\n<p>\u5728\u6b64\u793a\u4f8b\u4e2d\uff0c\u6211\u4eec\u4f7f\u7528read.table()\u51fd\u6570\u8bfb\u53d6\u540d\u4e3a\u201cSNP-new-old.txt\u201d\u7684\u6570\u636e\u6587\u4ef6\u3002\u8be5\u6587\u4ef6\u5305\u542b\u67d3\u8272\u4f53\u4e0a\u6bcf\u4e2a\u6570\u636e\u70b9\u7684\u4f4d\u7f6e\u548c\u503c\u4fe1\u606f\u3002\u6211\u4eec\u5c06\u8bfb\u53d6\u7684\u6570\u636e\u5b58\u50a8\u5728mydata\u53d8\u91cf\u4e2d\u3002<\/p>\n<p>\u63a5\u4e0b\u6765\uff0c\u6211\u4eec\u8c03\u7528CMplot()\u51fd\u6570\u3002<\/p>\n<p>plot.type\u53c2\u6570\u8bbe\u7f6e\u4e3a&#8221;d&#8221;\uff0c\u8868\u793a\u6211\u4eec\u8981\u7ed8\u5236SNP\u5bc6\u5ea6\u56fe\u3002\u5c0f\u679c\u79d1\u666e\uff1a\u5982\u679c\u60f3\u8981\u7ed8\u5236\u5806\u79ef\u56fe\uff0c\u5219\u53ef\u4ee5\u5c06\u5176\u8bbe\u7f6e\u4e3a&#8221;stack&#8221;\u54e6\uff0c\u5982\u679c\u60f3\u8981\u7ed8\u5236\u5e73\u6ed1\u7684\u66f2\u7ebf\u56fe\uff0c\u5219\u53ef\u4ee5\u5c06\u5176\u8bbe\u7f6e\u4e3a&#8221;spline&#8221;\u3002<\/p>\n<p>bin.size\u53c2\u6570\u8bbe\u7f6e\u4e3a1,000\uff0c\u8868\u793a\u60a8\u60f3\u8981\u5c06\u6570\u636e\u5206\u62101,000\u4e2a\u533a\u95f4\u8fdb\u884c\u53ef\u89c6\u5316\u3002\u5982\u679c\u4f60\u7684\u6570\u636e\u96c6\u5f88\u5c0f\uff0c\u5219\u53ef\u4ee5\u5c06\u5176\u8bbe\u7f6e\u4e3a\u66f4\u5c0f\u7684\u503c\u54e6\u3002\u53cd\u4e4b\u5982\u679c\u4f60\u7684\u7684\u6570\u636e\u96c6\u5f88\u5927\uff0c\u5219\u53ef\u4ee5\u5c06\u5176\u8bbe\u7f6e\u4e3a\u66f4\u5927\u7684\u503c\u5462\u3002<\/p>\n<p>col\u53c2\u6570\u6307\u5b9a\u4e86\u4e09\u79cd\u989c\u8272\uff0c\u7528\u4e8e\u8868\u793a\u4f4e\u5bc6\u5ea6\u3001\u4e2d\u7b49\u5bc6\u5ea6\u548c\u9ad8\u5bc6\u5ea6\u533a\u57df\u7684\u6570\u636e\u3002\u5982\u679c\u60a8\u60f3\u8981\u4f7f\u7528\u4e0d\u540c\u7684\u989c\u8272\uff0c\u8bf7\u5c06\u5176\u66ff\u6362\u4e3a\u60a8\u9009\u62e9\u7684\u989c\u8272\u3002<\/p>\n<p>\u597d\u5566\uff0c\u5230\u6b64\u4e3a\u6b62\u4f60\u5df2\u7ecf\u5b66\u4f1a\u4e86\u600e\u4e48\u7ed8\u5236SNP\u5bc6\u5ea6\u56fe\uff0c\u4e0b\u9762\u6211\u4eec\u4e00\u8d77\u6765\u770b\u770b\u6548\u679c\u5427\uff01<\/p>\n<p><img decoding=\"async\" loading=\"lazy\" width=\"640\" height=\"427\" class=\"wp-image-30338\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/unnamed-file.jpeg?resize=640%2C427\" alt=\"\u56fe\u8868\n\n\u63cf\u8ff0\u5df2\u81ea\u52a8\u751f\u6210\" srcset=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/unnamed-file.jpeg?w=1269 1269w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/unnamed-file.jpeg?resize=300%2C200 300w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/unnamed-file.jpeg?resize=1024%2C683 1024w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/unnamed-file.jpeg?resize=768%2C512 768w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/unnamed-file.jpeg?resize=600%2C400 600w\" sizes=\"(max-width: 640px) 100vw, 640px\" data-recalc-dims=\"1\" 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https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/unnamed-file-130.png?resize=300%2C228 300w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/unnamed-file-130.png?resize=1024%2C779 1024w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/unnamed-file-130.png?resize=768%2C584 768w, https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/02\/unnamed-file-130.png?resize=600%2C457 600w\" sizes=\"(max-width: 640px) 100vw, 640px\" data-recalc-dims=\"1\" \/> \u4e91\u751f\u4fe1\u5e73\u53f0\u4e5f\u6709\u7ed8\u56fe\u4e13\u7248\u7684\u5b66\u4e60\u6a21\u5757\u54e6\uff0c\u5feb\u6765\u627e\u5230\u4f60\u60f3\u5b66\u4e60\u7684\u4e13\u5c5e\u6a21\u5757\u5427\uff01<\/p>\n","protected":false},"excerpt":{"rendered":"<p>\u638c\u63e1CMplot\uff1a\u4f7f\u7528R\u8f7b\u677e\u521b\u5efa\u7cbe\u7f8eSNP\u5bc6\u5ea6\u56fe 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[&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\/30336"}],"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=30336"}],"version-history":[{"count":1,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/30336\/revisions"}],"predecessor-version":[{"id":30340,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/30336\/revisions\/30340"}],"wp:attachment":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=30336"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=30336"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=30336"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}