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15px;\">\u5f00\u542f\u5347\u7ea7\u6a21\u5f0f\u5427<\/span><\/strong><\/span><\/p>\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"color: rgb(255, 129, 36);font-size: 12px;letter-spacing: 0.5px;\">\uff0856\u7ebf\u7a0b\uff0c256G\u5185\u5b58\uff0c\u4e2a\u4eba\u5b58\u50a81T\uff09<\/span><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;width: 30%;vertical-align: top;align-self: flex-start;flex: 0 0 auto;height: auto;max-width: 30% !important;\">\n<section style=\"margin-top: 10px;margin-bottom: 10px;text-align: center;line-height: 0;\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\">\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-cropselx1=\"0\" data-cropselx2=\"162\" data-cropsely1=\"0\" data-cropsely2=\"162\" data-ratio=\"1\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_ib2l1ye6HNIkwTG696C2pf9yAtdeGA-33.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAyB69UyXDLG0wQcISNwmL6DlpIKVBnCSOXHTWJhLcxic2qtibaib2l1ye6HNIkwTG696C2pf9yAtdeGA\/640?wx_fmt=png'\" data-type=\"jpeg\" data-w=\"400\" style=\"height: 111px;vertical-align: middle;width: 111px;\" \/><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section data-role=\"list\">\n<ul class=\"list-paddingleft-1\" style=\"padding-left: 30px;width: 100%;list-style-position: outside;\">\n<li>\n<section><span style=\"line-height: 2em;font-size: 14px;letter-spacing: 0.5px;caret-color: rgb(255, 0, 0);\">M3Drop\u662f\u4e00\u4e2a\u5f3a\u5927\u7684\u5355\u7ec6\u80de\u6d4b\u5e8f\u5206\u6790\u5de5\u5177\uff0c\u90a3\u4e48\u4f60\u77e5\u9053\u600e\u6837\u901a\u8fc7M3Drop\u5206\u6790\u5355\u7ec6\u80de\u6570\u636e\u5417\uff1f\u611f\u5174\u8da3\u7684\u8bdd\u5c31\u548c\u5c0f\u679c\u4e00\u8d77\u6765\u770b\u770b\u5427\uff01<\/span><br \/><\/section>\n<\/li>\n<\/ul>\n<section>\n<section>\n<section><br \/><\/section>\n<section style=\"font-size: 16px;\">\n<section style=\"line-height: 0;text-align: center;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><img decoding=\"async\" data-ratio=\"0.5\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_QiaOCcR0jFpvjkSAu3UmKL82ohCV5Q-3.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNXhQ4GD7nqK0jxIA9vNfaZMfcibQiaOCcR0jFpvjkSAu3UmKL82ohCV5Q\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"500\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"font-size: 14px;direction: ltr;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;text-align: center;\"><span style=\"font-size: 20px;\"><strong><em><span style=\"font-size: 20px;color: rgb(62, 62, 62);\">\u4ec0\u4e48\u662fM3Drop\uff1f<\/span><\/em><\/strong><\/span><\/p>\n<p style=\"white-space: normal;\">M3Drop\u5305\u662f\u4e00\u4e2aR\u5305\uff0c\u4e3b\u8981\u7528\u4e8e\u5355\u7ec6\u80de\u8f6c\u5f55\u7ec4\u5b66(scRNASeq)\u6570\u636e\u7684\u9884\u5904\u7406\u548c\u5206\u6790\u3002\u5b83\u63d0\u4f9b\u4e86\u7528\u4e8e\u4f30\u8ba1\u566a\u58f0\u548cdropout\u7387\u7684\u7edf\u8ba1\u6a21\u578b\uff0c\u4ee5\u53ca\u7528\u4e8e\u8bc6\u522b\u5dee\u5f02\u8868\u8fbe\u57fa\u56e0\u7684\u529f\u80fd\u3002\u4e3b\u8981\u4f5c\u7528\u662f\u5e2e\u52a9\u7528\u6237\u5feb\u901f\u51c6\u786e\u5730\u5bf9\u5355\u7ec6\u80de\u8f6c\u5f55\u7ec4\u6570\u636e\u8fdb\u884c\u5904\u7406\u548c\u5206\u6790\uff0c\u6316\u6398\u5e76\u8bc6\u522b\u51fa\u5dee\u5f02\u8868\u8fbe\u57fa\u56e0\u3002\u90a3\u4e48\u6211\u4eec\u5c31\u6765\u4e00\u8d77\u770b\u770b\u5b83\u5177\u4f53\u662f\u600e\u4e48\u4f7f\u7528\u7684\u5427\uff01<\/p>\n<p style=\"white-space: normal;\"><br \/><\/p>\n<\/section>\n<section style=\"line-height: 0;text-align: center;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.5\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_s2ZHCtbN9nDKgpfniawYJJzqxT6v6g-2.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNq0nuSrPNnVriasrjcop8ONDW3ss2ZHCtbN9nDKgpfniawYJJzqxT6v6g\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"500\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"text-align: center;white-space: normal;\"><strong><em><span style=\"font-size: 20px;color: rgb(62, 62, 62);\">\u6570\u636e\u51c6\u5907\u4e0e\u9884\u5904\u7406<\/span><\/em><\/strong><\/p>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">library(scRNAseq)<\/span><\/code><code><span class=\"code-snippet_outer\">data(fluidigm) #\u8bbe\u7f6e\u6570\u636e\u96c6<\/span><\/code><code><span class=\"code-snippet_outer\">fluidigm<-ReprocessedFluidigmData() #\u5bfc\u5165\u6570\u636e\u96c6<\/span><\/code><code><span class=\"code-snippet_outer\">ct <- <span class=\"code-snippet__built_in\">floor<\/span>(assays(fluidigm)$rsem_counts) #\u751f\u6210\u6570\u636e\u77e9\u9635<\/span><\/code><code><span class=\"code-snippet_outer\">ct[<span class=\"code-snippet__number\">1<\/span>:<span class=\"code-snippet__number\">4<\/span>,<span class=\"code-snippet__number\">1<\/span>:<span class=\"code-snippet__number\">4<\/span>]<\/span><\/code><code><span class=\"code-snippet_outer\">counts <- ct<\/span><\/code><code><span class=\"code-snippet_outer\">sample_ann <- as.data.frame(colData(fluidigm))<\/span><\/code><code><span class=\"code-snippet_outer\">DT::datatable(sample_ann)<\/span><\/code><code><span class=\"code-snippet_outer\">View(ct)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;direction: ltr;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u6211\u4eec\u5148\u6765\u770b\u770b\u6211\u4eec\u5bfc\u5165\u7684\u6570\u636e\u662f\u4ec0\u4e48\u6837\u5427\uff01<\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.4657039711191336\" data-s=\"300,640\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_BA9fw14duyHj40btCLoMfAxq6slqHQ.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNsfPCjHZuQvicIZTz10QujJEpVBA9fw14duyHj40btCLoMfAxq6slqHQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"554\" style=\"\"><\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<\/section>\n<section style=\"line-height: 0;text-align: center;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.49899799599198397\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_PSgMgn9cx3xIMRpoK7HUMUxLr0HL3A-2.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNszG7picpYriceh3kdysIicAjyUtPSgMgn9cx3xIMRpoK7HUMUxLr0HL3A\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"499\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"text-align: center;white-space: normal;\"><strong><em><span style=\"font-size: 20px;color: rgb(62, 62, 62);\">\u6570\u636e\u8fc7\u6ee4<\/span><\/em><\/strong><\/p>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">chose_gene= apply(counts,<span class=\"code-snippet__number\">1<\/span>,function(x) sum(x><span class=\"code-snippet__number\">0<\/span>) )><span class=\"code-snippet__number\">0<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">table(chose_gene)<\/span><\/code><code><span class=\"code-snippet_outer\">counts <- counts[chose_gene,]<\/span><\/code><code><span class=\"code-snippet_outer\">table((apply(counts,<span class=\"code-snippet__number\">1<\/span>,function(x) sum(x><span class=\"code-snippet__number\">0<\/span>)><span class=\"code-snippet__number\">0<\/span> )))<\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><br \/><\/p>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.4400871459694989\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_5b6n1ktWiauTdCD5ibDmDlYhn4Gvlg-1.jpg\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_jpg\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNylh9Ot54aFJuqnzRED27naywY85b6n1ktWiauTdCD5ibDmDlYhn4Gvlg\/640?wx_fmt=jpeg'\" data-type=\"jpeg\" data-w=\"459\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"text-align: center;white-space: normal;\"><strong><em><span style=\"font-size: 20px;color: rgb(62, 62, 62);\">M3Drop\u5206\u6790<\/span><\/em><\/strong><\/p>\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u901a\u8fc7\u4e0a\u9762\u7684\u6570\u636e\u5904\u7406\uff0c\u6211\u4eec\u8fdb\u5165\u4eca\u5929\u7684\u6b63\u9898\uff0c\u90a3\u4e48M3Drop\u5982\u4f55\u8fdb\u884c\u4e0b\u4e00\u6b65\u7684\u5355\u7ec6\u80de\u5206\u6790\u5462\uff1f\u548c\u5c0f\u679c\u4e00\u8d77\u6765\u770b\u4e00\u4e0b\u5427\uff01<\/p>\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\"><strong><em><span style=\"font-size: 18px;color: rgb(62, 62, 62);\">1.\u6784\u5efaM3Drop\u5bf9\u8c61<\/span><\/em><\/strong><\/p>\n<p style=\"white-space: normal;\">\u5728\u4f7f\u7528M3Drop\u8fdb\u884c\u7edf\u8ba1\u5206\u6790\u4e4b\u524d\uff0c\u6211\u4eec\u9996\u5148\u4f7f\u7528M3DropCleanData()\u51fd\u6570\u521b\u5efa\u4e00\u4e2aM3Drop\u5bf9\u8c61\u3002\u5f53\u6211\u4eec\u4f7f\u7528\u8be5\u51fd\u6570\u65f6\uff0c\u5b83\u5c06\u6267\u884c\u6837\u672c\u8d28\u91cf\u63a7\u5236\uff0c\u5e76\u57fa\u4e8e\u8d28\u91cf\u63a7\u5236\u540e\u7684\u6570\u636e\u751f\u6210M3Drop\u5bf9\u8c61\u3002\u6700\u7ec8\u5f97\u5230\u7684\u5bf9\u8c61\u5c06\u5305\u542b\u6807\u7b7e\u3001\u6570\u636e\u7b49\u4fe1\u606f\u54e6\u3002<\/p>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">library(M3Drop)<\/span><\/code><code><span class=\"code-snippet_outer\">#\u751f\u6210M3Drop\u5bf9\u8c61<\/span><\/code><code><span class=\"code-snippet_outer\">Normalized_data <- M3DropCleanData(counts,<\/span><\/code><code><span class=\"code-snippet_outer\"> labels = sample_ann$Biological_Condition ,<\/span><\/code><code><span class=\"code-snippet_outer\"> is.counts=TRUE,min_detected_genes=<span class=\"code-snippet__number\">2000<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\"><strong><em><span style=\"font-size: 18px;color: rgb(62, 62, 62);\">2.\u4f7f\u7528M3Drop\u7edf\u8ba1\u5206\u6790<\/span><\/em><\/strong><\/p>\n<p style=\"white-space: normal;\">\u63a5\u4e0b\u6765\uff0c\u6211\u4eec\u53ef\u4ee5\u4f7f\u7528M3DropDropoutModels()\u51fd\u6570\u6267\u884cM3Drop\u7edf\u8ba1\u5206\u6790\u3002\u8be5\u51fd\u6570\u63a5\u6536\u6211\u4eec\u4e0a\u9762\u521b\u5efa\u597d\u7684M3Drop\u5bf9\u8c61\uff0c\u5e76\u8fd4\u56deMM\u3001logistic\u548cDoubleExpo\u6a21\u578b\u7684\u62df\u5408\u3002\u8be5\u51fd\u6570\u7684\u4f5c\u7528\u662f\u4f7f\u7528\u7edf\u8ba1\u6a21\u578b\u6765\u4f30\u8ba1\u566a\u58f0\u548cdropout\u7387\u3002<\/p>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">#\u4f7f\u7528M3Drop\u7edf\u8ba1\u5206\u6790<\/span><\/code><code><span class=\"code-snippet_outer\">fits <- M3DropDropoutModels(Normalized_data$data)<\/span><\/code><code><span class=\"code-snippet_outer\">#\u8ba1\u7b97\u6bcf\u4e2a\u6a21\u578b\u7684Sum absolute residuals<\/span><\/code><code><span class=\"code-snippet_outer\">data.frame(MM=fits$MMFit$SAr,<\/span><\/code><code><span class=\"code-snippet_outer\"> Logistic=fits$LogiFit$SAr,<\/span><\/code><code><span class=\"code-snippet_outer\"> DoubleExpo=fits$ExpoFit$SAr)<\/span><\/code><code><span class=\"code-snippet_outer\">#\u8ba1\u7b97\u6bcf\u4e2a\u6a21\u578b\u7684Sum squared residuals<\/span><\/code><code><span class=\"code-snippet_outer\">data.frame(MM=fits$MMFit$SSr,<\/span><\/code><code><span class=\"code-snippet_outer\"> Logistic=fits$LogiFit$SSr,<\/span><\/code><code><span class=\"code-snippet_outer\"> DoubleExpo=fits$ExpoFit$SSr)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u73b0\u5728\uff0c\u6211\u4eec\u4e00\u8d77\u6765\u770b\u770b\u901a\u8fc7M3Drop\u5206\u6790\u540e\u7684\u6548\u679c\u56fe\u5427\uff01<\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6010830324909747\" data-s=\"300,640\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_Jr4CuoRKaapGibY4hgYB0HAegOdoLw.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNVvR0cDS55lJsqVku2WaXPk8kicJr4CuoRKaapGibY4hgYB0HAegOdoLw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"554\" style=\"\"><\/p>\n<p style=\"white-space: normal;\"><strong><em><span style=\"font-size: 18px;color: rgb(62, 62, 62);\">3.\u5bfb\u627e\u548c\u7ed8\u5236\u5dee\u5f02\u57fa\u56e0<\/span><\/em><\/strong><\/p>\n<p style=\"white-space: normal;\">\u6700\u540e\uff0c\u6211\u4eec\u53ef\u4ee5\u4f7f\u7528M3DropFeatureSelection()\u51fd\u6570\u627e\u5230\u5dee\u5f02\u8868\u8fbe\u7684\u57fa\u56e0\uff0c\u5e76\u751f\u6210\u4e00\u4e2a\u5305\u542b\u8fd9\u4e9b\u57fa\u56e0\u7684\u6570\u636e\u6846\u201cDE_genes\u201d\u3002\u7136\u540e\u6211\u4eec\u4f7f\u7528M3DropExpressionHeatmap()\u51fd\u6570\u5bf9\u5dee\u5f02\u8868\u8fbe\u57fa\u56e0\u8fdb\u884c\u70ed\u56fe\u7ed8\u5236\uff0c\u4ee5\u5448\u73b0\u5176\u8868\u8fbe\u60c5\u51b5\u3002<\/p>\n<section style=\"font-size: 16px;\">\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><br \/><\/p>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">#\u627e\u5dee\u5f02\u57fa\u56e0<\/span><\/code><code><span class=\"code-snippet_outer\">DE_genes <- M3DropFeatureSelection(Normalized_data$data,<\/span><\/code><code><span class=\"code-snippet_outer\"> mt_method=<span class=\"code-snippet__string\">\"fdr\"<\/span>,mt_threshold=<span class=\"code-snippet__number\">0.01<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\">\u73b0\u5728\u6211\u4eec\u4e00\u8d77\u6765\u770b\u770b\u751f\u6210\u7684\u5dee\u5f02\u57fa\u56e0\u6a21\u578b\u56fe\uff1a<\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.5281837160751566\" data-s=\"300,640\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/8_Gw82ca5J5QZ8C78A2JCDFUSdmaktDg.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNGvhT9ZC7ykdvMjVPDWj07K46Gw82ca5J5QZ8C78A2JCDFUSdmaktDg\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"479\" style=\"\"><\/p>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">#\u7ed8\u5236\u70ed\u56fe<\/span><\/code><code><span class=\"code-snippet_outer\">par(mar=c(<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">1<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\">heat_out <- M3DropExpressionHeatmap(DE_genes$Gene,Normalized_data$data,<\/span><\/code><code><span class=\"code-snippet_outer\"> cell_labels = Normalized_data$labels)<\/span><\/code><\/pre>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6916299559471366\" data-s=\"300,640\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/9_lueTeran9VOYPgefL90ng4IicoDghw.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtN1iaHZMBWjYqeHooQEA0yR8jN2elueTeran9VOYPgefL90ng4IicoDghw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"454\" style=\"\"><\/p>\n<p style=\"white-space: normal;\">\u6700\u540e\u7ed8\u5236\u597d\u7684\u5dee\u5f02\u57fa\u56e0\u8868\u8fbe\u70ed\u56fe<\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u4ee5\u4e0a\u5c31\u662f\u5bf9scRNASeq\u6570\u636e\u8fdb\u884cM3Drop\u5206\u6790\u7684\u5b8c\u6574\u8fc7\u7a0b\uff0c\u600e\u4e48\u6837\uff0c\u4f60\u5b66\u4f1a\u4e86\u5417\uff1f\u66f4\u591a\u5b66\u4e60\u8d44\u6e90\u8bf7\u5927\u5bb6\u591a\u591a\u5173\u6ce8\u5c0f\u679c\u4e91\u751f\u4fe1\u5e73\u53f0\u54e6\uff01<\/p>\n<section data-tools=\"135\u7f16\u8f91\u5668\" data-id=\"105054\" style=\"margin-bottom: 0px;font-size: 16px;letter-spacing: 0.578px;white-space: normal;\">\n<section style=\"margin: 10px auto;text-align: center;\">\n<section style=\"padding-top: 30px;padding-bottom: 30px;background-color: rgb(242, 246, 255);border-radius: 7px;\">\n<section style=\"display: flex;justify-content: space-evenly;align-items: center;\">\n<section data-width=\"26%\" style=\"max-width: 26%;width: 150.208px;\">\n<section style=\"padding: 7px;border-radius: 15px;box-shadow: rgba(169, 187, 223, 0.45) 4px 4px 8px, rgb(255, 255, 255) -2.5px -2.5px 5px;\">\n<section data-width=\"100%\" style=\"width: 136.215px;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"1.005281690140845\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/10_0WFLKBMicbm6iawtkrNrMxpSVU9GBQ-1.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtN261llpmfF6btPBTUKkibEdnRz5Y0WFLKBMicbm6iawtkrNrMxpSVU9GBQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"568\" data-width=\"100%\" title=\"\u5c0f\u4e91-\u5fae\u4fe1\u4e8c\u7ef4\u7801.png\" style=\"vertical-align: inherit;width: 136.215px;display: block;border-radius: 7px;\" \/><\/section>\n<\/section>\n<\/section>\n<section data-width=\"62%\" style=\"max-width: 62%;width: 358.212px;\">\n<section style=\"display: inline-block;\">\n<section style=\"padding: 7px 15px;border-radius: 20px;box-shadow: rgba(169, 187, 223, 0.45) 6px 6px 8px inset, rgb(255, 255, 255) -2.5px -2.5px 5px inset;\">\n<section data-brushtype=\"text\" style=\"font-size: 14px;letter-spacing: 1.5px;color: rgb(111, 133, 172);\">\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"letter-spacing: 0.5px;\">\u5fae\u4fe1\u53f7 | 18502195490<\/span><\/p>\n<\/section>\n<\/section>\n<section style=\"margin-top: 12px;padding: 7px 15px;border-radius: 20px;box-shadow: rgba(169, 187, 223, 0.45) 6px 6px 8px inset, rgb(255, 255, 255) -2.5px -2.5px 5px inset;\">\n<section data-brushtype=\"text\" style=\"font-size: 14px;letter-spacing: 1.5px;color: rgb(111, 133, 172);\">\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"letter-spacing: 0.5px;\">\u77e5\u4e4e | \u751f\u4fe1\u679c<\/span><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"margin-bottom: 0px;font-size: 16px;letter-spacing: 0.578px;white-space: normal;caret-color: rgba(0, 0, 0, 0);\">\n<section>\n<section style=\"margin-top: 0.5em;\">\n<section style=\"padding: 0.5em;border-width: 1px;border-style: solid;box-shadow: rgb(226, 226, 226) 0px 16px 1px -13px;border-color: rgb(0, 150, 136);\">\n<section style=\"text-align: left;\">\n<section style=\"color: rgb(255, 129, 36);text-align: justify;\">\n<section style=\"margin-bottom: 8px;\">\n<p style=\"text-indent: 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0);\">M3Drop\u662f\u4e00\u4e2a\u5f3a\u5927\u7684\u5355\u7ec6\u80de\u6d4b\u5e8f\u5206\u6790\u5de5\u5177\uff0c\u90a3\u4e48\u4f60\u77e5\u9053\u600e\u6837\u901a\u8fc7M3Drop\u5206\u6790\u5355\u7ec6\u80de\u6570\u636e\u5417\uff1f\u611f\u5174\u8da3\u7684\u8bdd\u5c31\u548c\u5c0f\u679c\u4e00\u8d77\u6765\u770b\u770b\u5427\uff01<\/span><br \/><\/section>\n<\/li>\n<\/ul>\n<section>\n<section>\n<section><br \/><\/section>\n<section style=\"font-size: 16px;\">\n<section style=\"line-height: 0;text-align: center;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><img decoding=\"async\" data-ratio=\"0.5\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_QiaOCcR0jFpvjkSAu3UmKL82ohCV5Q-3.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNXhQ4GD7nqK0jxIA9vNfaZMfcibQiaOCcR0jFpvjkSAu3UmKL82ohCV5Q\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"500\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"font-size: 14px;direction: ltr;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;text-align: center;\"><span style=\"font-size: 20px;\"><strong><em><span style=\"font-size: 20px;color: rgb(62, 62, 62);\">\u4ec0\u4e48\u662fM3Drop\uff1f<\/span><\/em><\/strong><\/span><\/p>\n<p style=\"white-space: normal;\">M3Drop\u5305\u662f\u4e00\u4e2aR\u5305\uff0c\u4e3b\u8981\u7528\u4e8e\u5355\u7ec6\u80de\u8f6c\u5f55\u7ec4\u5b66(scRNASeq)\u6570\u636e\u7684\u9884\u5904\u7406\u548c\u5206\u6790\u3002\u5b83\u63d0\u4f9b\u4e86\u7528\u4e8e\u4f30\u8ba1\u566a\u58f0\u548cdropout\u7387\u7684\u7edf\u8ba1\u6a21\u578b\uff0c\u4ee5\u53ca\u7528\u4e8e\u8bc6\u522b\u5dee\u5f02\u8868\u8fbe\u57fa\u56e0\u7684\u529f\u80fd\u3002\u4e3b\u8981\u4f5c\u7528\u662f\u5e2e\u52a9\u7528\u6237\u5feb\u901f\u51c6\u786e\u5730\u5bf9\u5355\u7ec6\u80de\u8f6c\u5f55\u7ec4\u6570\u636e\u8fdb\u884c\u5904\u7406\u548c\u5206\u6790\uff0c\u6316\u6398\u5e76\u8bc6\u522b\u51fa\u5dee\u5f02\u8868\u8fbe\u57fa\u56e0\u3002\u90a3\u4e48\u6211\u4eec\u5c31\u6765\u4e00\u8d77\u770b\u770b\u5b83\u5177\u4f53\u662f\u600e\u4e48\u4f7f\u7528\u7684\u5427\uff01<\/p>\n<p style=\"white-space: normal;\"><br \/><\/p>\n<\/section>\n<section style=\"line-height: 0;text-align: center;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.5\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_s2ZHCtbN9nDKgpfniawYJJzqxT6v6g-2.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNq0nuSrPNnVriasrjcop8ONDW3ss2ZHCtbN9nDKgpfniawYJJzqxT6v6g\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"500\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"text-align: center;white-space: normal;\"><strong><em><span style=\"font-size: 20px;color: rgb(62, 62, 62);\">\u6570\u636e\u51c6\u5907\u4e0e\u9884\u5904\u7406<\/span><\/em><\/strong><\/p>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">library(scRNAseq)<\/span><\/code><code><span class=\"code-snippet_outer\">data(fluidigm) #\u8bbe\u7f6e\u6570\u636e\u96c6<\/span><\/code><code><span class=\"code-snippet_outer\">fluidigm<-ReprocessedFluidigmData() #\u5bfc\u5165\u6570\u636e\u96c6<\/span><\/code><code><span class=\"code-snippet_outer\">ct <- <span class=\"code-snippet__built_in\">floor<\/span>(assays(fluidigm)$rsem_counts) #\u751f\u6210\u6570\u636e\u77e9\u9635<\/span><\/code><code><span class=\"code-snippet_outer\">ct[<span class=\"code-snippet__number\">1<\/span>:<span class=\"code-snippet__number\">4<\/span>,<span class=\"code-snippet__number\">1<\/span>:<span class=\"code-snippet__number\">4<\/span>]<\/span><\/code><code><span class=\"code-snippet_outer\">counts <- ct<\/span><\/code><code><span class=\"code-snippet_outer\">sample_ann <- as.data.frame(colData(fluidigm))<\/span><\/code><code><span class=\"code-snippet_outer\">DT::datatable(sample_ann)<\/span><\/code><code><span class=\"code-snippet_outer\">View(ct)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;direction: ltr;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u6211\u4eec\u5148\u6765\u770b\u770b\u6211\u4eec\u5bfc\u5165\u7684\u6570\u636e\u662f\u4ec0\u4e48\u6837\u5427\uff01<\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.4657039711191336\" data-s=\"300,640\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_BA9fw14duyHj40btCLoMfAxq6slqHQ.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNsfPCjHZuQvicIZTz10QujJEpVBA9fw14duyHj40btCLoMfAxq6slqHQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"554\" style=\"\"><\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<\/section>\n<section style=\"line-height: 0;text-align: center;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.49899799599198397\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_PSgMgn9cx3xIMRpoK7HUMUxLr0HL3A-2.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNszG7picpYriceh3kdysIicAjyUtPSgMgn9cx3xIMRpoK7HUMUxLr0HL3A\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"499\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"text-align: center;white-space: normal;\"><strong><em><span style=\"font-size: 20px;color: rgb(62, 62, 62);\">\u6570\u636e\u8fc7\u6ee4<\/span><\/em><\/strong><\/p>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">chose_gene= apply(counts,<span class=\"code-snippet__number\">1<\/span>,function(x) sum(x><span class=\"code-snippet__number\">0<\/span>) )><span class=\"code-snippet__number\">0<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">table(chose_gene)<\/span><\/code><code><span class=\"code-snippet_outer\">counts <- counts[chose_gene,]<\/span><\/code><code><span class=\"code-snippet_outer\">table((apply(counts,<span class=\"code-snippet__number\">1<\/span>,function(x) sum(x><span class=\"code-snippet__number\">0<\/span>)><span class=\"code-snippet__number\">0<\/span> )))<\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><br \/><\/p>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.4400871459694989\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_5b6n1ktWiauTdCD5ibDmDlYhn4Gvlg-1.jpg\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_jpg\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNylh9Ot54aFJuqnzRED27naywY85b6n1ktWiauTdCD5ibDmDlYhn4Gvlg\/640?wx_fmt=jpeg'\" data-type=\"jpeg\" data-w=\"459\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"line-height: 0;text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;width: 20%;height: auto;\"><br \/><\/section>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"text-align: center;white-space: normal;\"><strong><em><span style=\"font-size: 20px;color: rgb(62, 62, 62);\">M3Drop\u5206\u6790<\/span><\/em><\/strong><\/p>\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u901a\u8fc7\u4e0a\u9762\u7684\u6570\u636e\u5904\u7406\uff0c\u6211\u4eec\u8fdb\u5165\u4eca\u5929\u7684\u6b63\u9898\uff0c\u90a3\u4e48M3Drop\u5982\u4f55\u8fdb\u884c\u4e0b\u4e00\u6b65\u7684\u5355\u7ec6\u80de\u5206\u6790\u5462\uff1f\u548c\u5c0f\u679c\u4e00\u8d77\u6765\u770b\u4e00\u4e0b\u5427\uff01<\/p>\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\"><strong><em><span style=\"font-size: 18px;color: rgb(62, 62, 62);\">1.\u6784\u5efaM3Drop\u5bf9\u8c61<\/span><\/em><\/strong><\/p>\n<p style=\"white-space: normal;\">\u5728\u4f7f\u7528M3Drop\u8fdb\u884c\u7edf\u8ba1\u5206\u6790\u4e4b\u524d\uff0c\u6211\u4eec\u9996\u5148\u4f7f\u7528M3DropCleanData()\u51fd\u6570\u521b\u5efa\u4e00\u4e2aM3Drop\u5bf9\u8c61\u3002\u5f53\u6211\u4eec\u4f7f\u7528\u8be5\u51fd\u6570\u65f6\uff0c\u5b83\u5c06\u6267\u884c\u6837\u672c\u8d28\u91cf\u63a7\u5236\uff0c\u5e76\u57fa\u4e8e\u8d28\u91cf\u63a7\u5236\u540e\u7684\u6570\u636e\u751f\u6210M3Drop\u5bf9\u8c61\u3002\u6700\u7ec8\u5f97\u5230\u7684\u5bf9\u8c61\u5c06\u5305\u542b\u6807\u7b7e\u3001\u6570\u636e\u7b49\u4fe1\u606f\u54e6\u3002<\/p>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">library(M3Drop)<\/span><\/code><code><span class=\"code-snippet_outer\">#\u751f\u6210M3Drop\u5bf9\u8c61<\/span><\/code><code><span class=\"code-snippet_outer\">Normalized_data <- M3DropCleanData(counts,<\/span><\/code><code><span class=\"code-snippet_outer\"> labels = sample_ann$Biological_Condition ,<\/span><\/code><code><span class=\"code-snippet_outer\"> is.counts=TRUE,min_detected_genes=<span class=\"code-snippet__number\">2000<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\"><strong><em><span style=\"font-size: 18px;color: rgb(62, 62, 62);\">2.\u4f7f\u7528M3Drop\u7edf\u8ba1\u5206\u6790<\/span><\/em><\/strong><\/p>\n<p style=\"white-space: normal;\">\u63a5\u4e0b\u6765\uff0c\u6211\u4eec\u53ef\u4ee5\u4f7f\u7528M3DropDropoutModels()\u51fd\u6570\u6267\u884cM3Drop\u7edf\u8ba1\u5206\u6790\u3002\u8be5\u51fd\u6570\u63a5\u6536\u6211\u4eec\u4e0a\u9762\u521b\u5efa\u597d\u7684M3Drop\u5bf9\u8c61\uff0c\u5e76\u8fd4\u56deMM\u3001logistic\u548cDoubleExpo\u6a21\u578b\u7684\u62df\u5408\u3002\u8be5\u51fd\u6570\u7684\u4f5c\u7528\u662f\u4f7f\u7528\u7edf\u8ba1\u6a21\u578b\u6765\u4f30\u8ba1\u566a\u58f0\u548cdropout\u7387\u3002<\/p>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">#\u4f7f\u7528M3Drop\u7edf\u8ba1\u5206\u6790<\/span><\/code><code><span class=\"code-snippet_outer\">fits <- M3DropDropoutModels(Normalized_data$data)<\/span><\/code><code><span class=\"code-snippet_outer\">#\u8ba1\u7b97\u6bcf\u4e2a\u6a21\u578b\u7684Sum absolute residuals<\/span><\/code><code><span class=\"code-snippet_outer\">data.frame(MM=fits$MMFit$SAr,<\/span><\/code><code><span class=\"code-snippet_outer\"> Logistic=fits$LogiFit$SAr,<\/span><\/code><code><span class=\"code-snippet_outer\"> DoubleExpo=fits$ExpoFit$SAr)<\/span><\/code><code><span class=\"code-snippet_outer\">#\u8ba1\u7b97\u6bcf\u4e2a\u6a21\u578b\u7684Sum squared residuals<\/span><\/code><code><span class=\"code-snippet_outer\">data.frame(MM=fits$MMFit$SSr,<\/span><\/code><code><span class=\"code-snippet_outer\"> Logistic=fits$LogiFit$SSr,<\/span><\/code><code><span class=\"code-snippet_outer\"> DoubleExpo=fits$ExpoFit$SSr)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u73b0\u5728\uff0c\u6211\u4eec\u4e00\u8d77\u6765\u770b\u770b\u901a\u8fc7M3Drop\u5206\u6790\u540e\u7684\u6548\u679c\u56fe\u5427\uff01<\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6010830324909747\" data-s=\"300,640\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_Jr4CuoRKaapGibY4hgYB0HAegOdoLw.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNVvR0cDS55lJsqVku2WaXPk8kicJr4CuoRKaapGibY4hgYB0HAegOdoLw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"554\" style=\"\"><\/p>\n<p style=\"white-space: normal;\"><strong><em><span style=\"font-size: 18px;color: rgb(62, 62, 62);\">3.\u5bfb\u627e\u548c\u7ed8\u5236\u5dee\u5f02\u57fa\u56e0<\/span><\/em><\/strong><\/p>\n<p style=\"white-space: normal;\">\u6700\u540e\uff0c\u6211\u4eec\u53ef\u4ee5\u4f7f\u7528M3DropFeatureSelection()\u51fd\u6570\u627e\u5230\u5dee\u5f02\u8868\u8fbe\u7684\u57fa\u56e0\uff0c\u5e76\u751f\u6210\u4e00\u4e2a\u5305\u542b\u8fd9\u4e9b\u57fa\u56e0\u7684\u6570\u636e\u6846\u201cDE_genes\u201d\u3002\u7136\u540e\u6211\u4eec\u4f7f\u7528M3DropExpressionHeatmap()\u51fd\u6570\u5bf9\u5dee\u5f02\u8868\u8fbe\u57fa\u56e0\u8fdb\u884c\u70ed\u56fe\u7ed8\u5236\uff0c\u4ee5\u5448\u73b0\u5176\u8868\u8fbe\u60c5\u51b5\u3002<\/p>\n<section style=\"font-size: 16px;\">\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><br \/><\/p>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">#\u627e\u5dee\u5f02\u57fa\u56e0<\/span><\/code><code><span class=\"code-snippet_outer\">DE_genes <- M3DropFeatureSelection(Normalized_data$data,<\/span><\/code><code><span class=\"code-snippet_outer\"> mt_method=<span class=\"code-snippet__string\">\"fdr\"<\/span>,mt_threshold=<span class=\"code-snippet__number\">0.01<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\">\u73b0\u5728\u6211\u4eec\u4e00\u8d77\u6765\u770b\u770b\u751f\u6210\u7684\u5dee\u5f02\u57fa\u56e0\u6a21\u578b\u56fe\uff1a<\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.5281837160751566\" data-s=\"300,640\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/8_Gw82ca5J5QZ8C78A2JCDFUSdmaktDg.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtNGvhT9ZC7ykdvMjVPDWj07K46Gw82ca5J5QZ8C78A2JCDFUSdmaktDg\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"479\" style=\"\"><\/p>\n<\/section>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\">#\u7ed8\u5236\u70ed\u56fe<\/span><\/code><code><span class=\"code-snippet_outer\">par(mar=c(<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">1<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\">heat_out <- M3DropExpressionHeatmap(DE_genes$Gene,Normalized_data$data,<\/span><\/code><code><span class=\"code-snippet_outer\"> cell_labels = Normalized_data$labels)<\/span><\/code><\/pre>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"font-size: 14px;\" powered-by=\"xiumi.us\">\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.6916299559471366\" data-s=\"300,640\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/9_lueTeran9VOYPgefL90ng4IicoDghw.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtN1iaHZMBWjYqeHooQEA0yR8jN2elueTeran9VOYPgefL90ng4IicoDghw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"454\" style=\"\"><\/p>\n<p style=\"white-space: normal;\">\u6700\u540e\u7ed8\u5236\u597d\u7684\u5dee\u5f02\u57fa\u56e0\u8868\u8fbe\u70ed\u56fe<\/p>\n<p style=\"text-align: center;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u4ee5\u4e0a\u5c31\u662f\u5bf9scRNASeq\u6570\u636e\u8fdb\u884cM3Drop\u5206\u6790\u7684\u5b8c\u6574\u8fc7\u7a0b\uff0c\u600e\u4e48\u6837\uff0c\u4f60\u5b66\u4f1a\u4e86\u5417\uff1f\u66f4\u591a\u5b66\u4e60\u8d44\u6e90\u8bf7\u5927\u5bb6\u591a\u591a\u5173\u6ce8\u5c0f\u679c\u4e91\u751f\u4fe1\u5e73\u53f0\u54e6\uff01<\/p>\n<section data-tools=\"135\u7f16\u8f91\u5668\" data-id=\"105054\" style=\"margin-bottom: 0px;font-size: 16px;letter-spacing: 0.578px;white-space: normal;\">\n<section style=\"margin: 10px auto;text-align: center;\">\n<section style=\"padding-top: 30px;padding-bottom: 30px;background-color: rgb(242, 246, 255);border-radius: 7px;\">\n<section style=\"display: flex;justify-content: space-evenly;align-items: center;\">\n<section data-width=\"26%\" style=\"max-width: 26%;width: 150.208px;\">\n<section style=\"padding: 7px;border-radius: 15px;box-shadow: rgba(169, 187, 223, 0.45) 4px 4px 8px, rgb(255, 255, 255) -2.5px -2.5px 5px;\">\n<section data-width=\"100%\" style=\"width: 136.215px;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"1.005281690140845\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/10_0WFLKBMicbm6iawtkrNrMxpSVU9GBQ-1.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/zcicibWZessAxec5nH6tybm0EXxCaibxbtN261llpmfF6btPBTUKkibEdnRz5Y0WFLKBMicbm6iawtkrNrMxpSVU9GBQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"568\" data-width=\"100%\" title=\"\u5c0f\u4e91-\u5fae\u4fe1\u4e8c\u7ef4\u7801.png\" style=\"vertical-align: inherit;width: 136.215px;display: block;border-radius: 7px;\" \/><\/section>\n<\/section>\n<\/section>\n<section data-width=\"62%\" style=\"max-width: 62%;width: 358.212px;\">\n<section style=\"display: inline-block;\">\n<section style=\"padding: 7px 15px;border-radius: 20px;box-shadow: rgba(169, 187, 223, 0.45) 6px 6px 8px inset, rgb(255, 255, 255) -2.5px -2.5px 5px inset;\">\n<section data-brushtype=\"text\" style=\"font-size: 14px;letter-spacing: 1.5px;color: rgb(111, 133, 172);\">\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"letter-spacing: 0.5px;\">\u5fae\u4fe1\u53f7 | 18502195490<\/span><\/p>\n<\/section>\n<\/section>\n<section style=\"margin-top: 12px;padding: 7px 15px;border-radius: 20px;box-shadow: rgba(169, 187, 223, 0.45) 6px 6px 8px inset, rgb(255, 255, 255) -2.5px -2.5px 5px inset;\">\n<section data-brushtype=\"text\" style=\"font-size: 14px;letter-spacing: 1.5px;color: rgb(111, 133, 172);\">\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"letter-spacing: 0.5px;\">\u77e5\u4e4e | \u751f\u4fe1\u679c<\/span><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"margin-bottom: 0px;font-size: 16px;letter-spacing: 0.578px;white-space: normal;caret-color: rgba(0, 0, 0, 0);\">\n<section>\n<section style=\"margin-top: 0.5em;\">\n<section style=\"padding: 0.5em;border-width: 1px;border-style: solid;box-shadow: rgb(226, 226, 226) 0px 16px 1px -13px;border-color: rgb(0, 150, 136);\">\n<section style=\"text-align: left;\">\n<section style=\"color: rgb(255, 129, 36);text-align: justify;\">\n<section style=\"margin-bottom: 8px;\">\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"letter-spacing: 0.5px;\">\u70b9\u51fb<strong><span style=\"color: rgb(0, 150, 136);\">\u201c\u9605\u8bfb\u539f\u6587\u201d<\/span><\/strong>\u7acb\u523b\u62e5\u6709<\/span><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"margin-bottom: 8px;font-size: 32px;color: rgb(0, 150, 136);\">\n<p style=\"text-indent: 0em;line-height: 1.75em;\"><span style=\"letter-spacing: 0.5px;\">\u2193\u2193\u2193 <\/span><span style=\"letter-spacing: 0.5px;text-indent: 0em;\"><\/span><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<p style=\"display: none;\"><mp-style-type data-value=\"3\"><\/mp-style-type><\/p>\n<div class=\"msg_source_url\"><a href=\"http:\/\/www.biocloudservice.com\/home.html\" target=\"_blank\" rel=\"noopener\">\u9605\u8bfb\u539f\u6587<\/a><\/div>\n<p><\/content><\/p>\n<div class=\"msg_source_url\"><a href=\"http:\/\/www.biocloudservice.com\/home.html\" target=\"_blank\" rel=\"noopener\">\u9605\u8bfb\u539f\u6587<\/a><\/div>\n<\/div>\n<p><\/body><br \/>\n<\/html><\/p>\n","protected":false},"excerpt":{"rendered":"<p>\u60f3\u8981\u7cbe\u51c6\u5206\u6790scRNASeq\u6570\u636e\uff1fM3Drop\u52a9\u4f60\u4e8b\u534a\u529f\u500d\uff01 \u539f\u521b \u5c0f\u679c &n […]<\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"closed","ping_status":"","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\/55932"}],"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=55932"}],"version-history":[{"count":1,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/55932\/revisions"}],"predecessor-version":[{"id":55943,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/55932\/revisions\/55943"}],"wp:attachment":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=55932"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=55932"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=55932"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}