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wrap;\"><strong>\u70b9\u51fb\u84dd\u5b57 \u5173\u6ce8\u6211\u4eec<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;line-height: 0;flex: 0 0 0%;height: auto;\">\n<section style=\"text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 16px;height: 12px;vertical-align: top;overflow: hidden;background-color: rgb(59, 149, 115);padding-right: 2px;padding-left: 2px;\">\n<section style=\"justify-content: center;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"text-align: center;transform: translate3d(3px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 0px;height: 0px;vertical-align: top;overflow: hidden;border-style: solid;border-width: 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\/><\/p>\n<p>\u5b98\u65b9\u6559\u7a0bhttps:\/\/github.com\/aertslab\/SCENIC<\/p>\n<p>\u8fd9\u91cc\u4f7f\u7528python\u7248\u672c\u7684pyscenic\u548cR\u53ef\u89c6\u5316\u76f8\u7ed3\u5408\u7684\u65b9\u6cd5\uff0c\u5229\u7528\u5355\u7ec6\u80de\u6ce8\u91ca\u5b8c\u6574\u7684Seurat\u5bf9\u8c61\uff0c\u5f97\u5230\u4e0d\u540c\u7ec4\u522b\u548c\u4e0d\u540c\u7ec6\u80de\u7c7b\u578b\u4e2d\u9ad8\u8868\u8fbe\u7684\u8f6c\u5f55\u56e0\u5b50\u70ed\u56fe\u3002<\/p>\n<p><br \/><\/p>\n<p>\u6ce8\u610f\uff1a1\u3001SCENIC\u6570\u636e\u5e93\u652f\u6301\u7684\u7269\u79cd\u5305\u62ec\u4eba\u7c7b\u3001\u5c0f\u9f20\u548c\u679c\u8747\uff0c\u5982\u679c\u7814\u7a76\u5176\u4ed6\u7269\u79cd\u9700\u8981\u624b\u52a8\u6784\u5efaRcisTarget databases<\/p>\n<p>2\u3001SCENIC\u5bf9\u7535\u8111\u8981\u6c42\u8f83\u5927\u3001\u8017\u65f6\u957f\uff0c\u6700\u597d\u5728\u670d\u52a1\u5668\u4e2d\u8fd0\u884c\u3002\u5982\u6211\u4eec\u5e38\u89c1\u7684PBMC\u6570\u636e\u5e93\u76841w\u4e2a\u7ec6\u80de\u5728\u670d\u52a1\u5668\u4e2d\u8fd0\u884c\u9700\u8981\u5360\u7528CPU\u7ea6\u4e24\u4e2a\u5c0f\u65f6\u3001\u6d88\u801760G\u5de6\u53f3\u7684\u5185\u5b58\u3002<\/p>\n<p><br \/><\/p>\n<\/section>\n<section style=\"margin: 10px 0%;display: flex;flex-flow: row;text-align: center;justify-content: center;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;line-height: 0;margin-right: -23px;z-index: 2;\">\n<section style=\"\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 16px;height: 12px;vertical-align: top;overflow: hidden;background-color: rgb(231, 215, 173);padding-right: 2px;padding-left: 2px;\">\n<section style=\"justify-content: center;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"transform: translate3d(3px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 0px;height: 0px;vertical-align: top;overflow: hidden;border-style: solid;border-width: 0px 0px 4px 4px;border-color: rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgb(231, 215, 173);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;background-color: rgb(245, 241, 224);flex: 0 0 auto;align-self: flex-start;margin-top: 6px;min-width: 10%;height: auto;\">\n<section style=\"margin: 8px 0% 3px;\" powered-by=\"xiumi.us\">\n<section style=\"color: rgb(59, 149, 115);font-size: 17px;padding-right: 15px;padding-left: 15px;letter-spacing: 0px;text-align: justify;\">\n<p><strong>#\u8868\u8fbe\u77e9\u9635<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\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=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8868\u8fbe\u77e9\u9635<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">\u9996\u5148\u5728R\u91cc\u5c06Seurat\u5bf9\u8c61\u7684\u8868\u8fbe\u91cf\u77e9\u9635\u8f93\u51fa\u4e3acsv\u6587\u4ef6<\/span><\/code><code><span class=\"code-snippet_outer\">write.csv(t(as.matrix(sce@assays$RNA@counts)),<\/span><\/code><code><span class=\"code-snippet_outer\"> file = <span class=\"code-snippet__string\">\"count.csv\"<\/span>) <\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#pyscenic\u7684\u8f93\u5165\u6587\u4ef6\u662f\u884c\u4e3a\u57fa\u56e0\u540d\uff0c\u5217\u4e3a\u7ec6\u80deID\u7684\u77e9\u9635\uff0c\u6240\u4ee5\u5728seurat\u5bf9\u8c61\u4e2d\u5bfc\u51fa\u77e9\u9635\u7684\u65f6\u5019\u8bb0\u5f97\u8f6c\u7f6e\u4e00\u4e0b\u54e6~<\/span><\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<section style=\"margin: 10px 0%;display: flex;flex-flow: row;text-align: center;justify-content: center;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;line-height: 0;margin-right: -23px;z-index: 2;\">\n<section style=\"\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 16px;height: 12px;vertical-align: top;overflow: hidden;background-color: rgb(231, 215, 173);padding-right: 2px;padding-left: 2px;\">\n<section style=\"justify-content: center;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"transform: translate3d(3px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 0px;height: 0px;vertical-align: top;overflow: hidden;border-style: solid;border-width: 0px 0px 4px 4px;border-color: rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgb(231, 215, 173);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;background-color: rgb(245, 241, 224);flex: 0 0 auto;align-self: flex-start;margin-top: 6px;min-width: 10%;height: auto;\">\n<section style=\"margin: 8px 0% 3px;\" powered-by=\"xiumi.us\">\n<section style=\"color: rgb(59, 149, 115);font-size: 17px;padding-right: 15px;padding-left: 15px;letter-spacing: 0px;text-align: justify;\">\n<p><strong>#\u683c\u5f0f\u8f6c\u6362<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\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<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=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u683c\u5f0f\u8f6c\u6362<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">\u518d\u5728linux\u73af\u5883\u5199\u4e00\u4e2apython\u811a\u672c\uff08csv2loom.py\uff09\uff0c\u5c06csv\u8f6c\u6362\u4e3aloom\u6587\u4ef6<\/span><\/code><code><span class=\"code-snippet_outer\">import os, sys<\/span><\/code><code><span class=\"code-snippet_outer\">os.getcwd()<\/span><\/code><code><span class=\"code-snippet_outer\">os.listdir(os.getcwd()) <\/span><\/code><code><span class=\"code-snippet_outer\"><br \/><\/span><\/code><code><span class=\"code-snippet_outer\">import loompy as lp;<\/span><\/code><code><span class=\"code-snippet_outer\">import numpy as np;<\/span><\/code><code><span class=\"code-snippet_outer\">import scanpy as sc;<\/span><\/code><code><span class=\"code-snippet_outer\">x=sc.read_csv(<span class=\"code-snippet__string\">\"count.csv\"<\/span>);<\/span><\/code><code><span class=\"code-snippet_outer\">row_attrs = {<span class=\"code-snippet__string\">\"Gene\"<\/span>: np.array(x.var_names),};<\/span><\/code><code><span class=\"code-snippet_outer\">col_attrs = {<span class=\"code-snippet__string\">\"CellID\"<\/span>: np.array(x.obs_names)};<\/span><\/code><code><span class=\"code-snippet_outer\">lp.create(<span class=\"code-snippet__string\">\"sample.loom\"<\/span>,x.X.transpose(),row_attrs,col_attrs)<\/span><\/code><code><span class=\"code-snippet_outer\"><br \/><\/span><\/code><code><span class=\"code-snippet_outer\">\u5982\u679c\u63d0\u524d\u914d\u7f6e\u597d\u4e86pyscenic\u73af\u5883<\/span><\/code><code><span class=\"code-snippet_outer\">conda activate pyscenic<\/span><\/code><code><span class=\"code-snippet_outer\">python csv2loom.py<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8fd9\u4e00\u6b65\u8fd0\u884c\u53ef\u80fd\u9700\u8981\u4e00\u6bb5\u65f6\u95f4\uff0c\u53ef\u4ee5\u4f7f\u7528\u201dnohup &\u201d\u547d\u4ee4\u6302\u540e\u53f0\u54e6\u3002\u8fd0\u884c\u7ed3\u675f\u540e\u5c31\u5f97\u5230\u4e86\u6211\u4eec\u9700\u8981\u7684loom\u6587\u4ef6\u3002<\/span><\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<section style=\"margin: 10px 0%;display: flex;flex-flow: row;text-align: center;justify-content: center;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;line-height: 0;margin-right: -23px;z-index: 2;\">\n<section style=\"\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 16px;height: 12px;vertical-align: top;overflow: hidden;background-color: rgb(231, 215, 173);padding-right: 2px;padding-left: 2px;\">\n<section style=\"justify-content: center;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"transform: translate3d(3px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 0px;height: 0px;vertical-align: top;overflow: hidden;border-style: solid;border-width: 0px 0px 4px 4px;border-color: rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgb(231, 215, 173);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;background-color: rgb(245, 241, 224);flex: 0 0 auto;align-self: flex-start;margin-top: 6px;min-width: 10%;height: auto;\">\n<section style=\"margin: 8px 0% 3px;\" powered-by=\"xiumi.us\">\n<section style=\"color: rgb(59, 149, 115);font-size: 17px;padding-right: 15px;padding-left: 15px;letter-spacing: 0px;text-align: justify;\">\n<p><strong>#\u6587\u4ef6\u51c6\u5907<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\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=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u6587\u4ef6\u51c6\u5907<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">\u8fd0\u884cpyscenic\u4e4b\u524d\u9700\u8981\u5728linux\u63d0\u524d\u4e0b\u8f7d\u597d\u4e09\u4e2a\u6587\u4ef6\uff08\u8fd9\u91cc\u9488\u5bf9\u4eba\u7c7b\u6837\u672c\uff09<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__number\">1<\/span>\u3001hs_hgnc_tfs.txt\uff08\u8f6c\u5f55\u7ec4\u56e0\u5b50\u5217\u8868\uff09<\/span><\/code><code><span class=\"code-snippet_outer\">https:\/\/github.com\/aertslab\/pySCENIC\/blob\/master\/resources\/hs_hgnc_tfs.txt<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__number\">2<\/span>\u3001hg19-tss-centered-<span class=\"code-snippet__number\">10<\/span>kb-<span class=\"code-snippet__number\">7<\/span>species.mc9nr.feather\uff08reference\u6570\u636e\u5e93\uff09<\/span><\/code><code><span class=\"code-snippet_outer\">https:\/\/resources.aertslab.org\/cistarget\/databases\/homo_sapiens\/hg19\/refseq_r45\/mc9nr\/gene_based\/hg19-tss-centered-<span class=\"code-snippet__number\">10<\/span>kb-<span class=\"code-snippet__number\">7<\/span>species.mc9nr.feather<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__number\">3<\/span>\u3001motifs-v9-nr.hgnc-m0.001-o0.0.tbl\uff08TF\u6ce8\u91ca\uff09<\/span><\/code><code><span class=\"code-snippet_outer\">https:\/\/resources.aertslab.org\/cistarget\/motif2tf\/motifs-v9-nr.hgnc-m0.001-o0.0.tbl<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u4e0b\u8f7d\u540e\u8bb0\u5f97\u7528md5\u6838\u5bf9\u54e6<\/span><\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<p>\u63a5\u4e0b\u6765\u5c31\u53ef\u4ee5\u6b63\u5f0f\u5f00\u59cbpyscenic\u5566<\/p>\n<\/section>\n<section style=\"text-align: left;justify-content: flex-start;margin-top: 20px;margin-bottom: 10px;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;background-color: rgb(59, 149, 115);min-width: 10%;flex: 0 0 auto;height: auto;align-self: flex-start;\">\n<section style=\"color: rgb(245, 245, 245);text-align: justify;letter-spacing: 1.2px;padding-right: 20px;padding-left: 20px;\" powered-by=\"xiumi.us\">\n<p><strong>\u7b2c\u4e00\u6b65grn\uff1a\u8fc7\u6ee4\u5171\u8868\u8fbe\u77e9\u9635\uff0c\u5c06target\u683c\u5f0f\u5316\u4e3a\u5171\u8868\u8fbe\u6a21\u5757<\/strong><\/p>\n<\/section>\n<\/section>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">pyscenic grn <\/span><\/code><code><span class=\"code-snippet_outer\">--num_workers <span class=\"code-snippet__number\">20<\/span> <span class=\"code-snippet__comment\">#\u6700\u597d\u8bbe\u7f6e\u4e00\u4e0b\uff0c\u5426\u5219\u53ef\u80fd\u4f1a\u628a\u670d\u52a1\u5668CPU\u5360\u6ee1<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">--output adj.sample.tsv <\/span><\/code><code><span class=\"code-snippet_outer\">--method grnboost2 <\/span><\/code><code><span class=\"code-snippet_outer\">sample.loom <\/span><\/code><code><span class=\"code-snippet_outer\">hs_hgnc_tfs.txt<\/span><\/code><\/pre>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"text-align: left;justify-content: flex-start;margin-top: 20px;margin-bottom: 10px;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;background-color: rgb(59, 149, 115);min-width: 10%;flex: 0 0 auto;height: auto;align-self: flex-start;\">\n<section style=\"color: rgb(245, 245, 245);text-align: justify;letter-spacing: 1.2px;padding-right: 20px;padding-left: 20px;\" powered-by=\"xiumi.us\">\n<p><strong>\u7b2c\u4e8c\u6b65cistarget\uff1a\u57fa\u4e8eDNA-motif\u7684\u5206\u6790\uff0c\u9009\u62e9\u6f5c\u5728\u7684\u76f4\u63a5\u7ed3\u5408\u7684target\uff08regulons\uff09<\/strong><\/p>\n<\/section>\n<\/section>\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=\"r\"><code><span class=\"code-snippet_outer\">pyscenic ctx <\/span><\/code><code><span class=\"code-snippet_outer\">adj.sample.tsv <\/span><\/code><code><span class=\"code-snippet_outer\">hg19-tss-centered-<span class=\"code-snippet__number\">10<\/span>kb-<span class=\"code-snippet__number\">7<\/span>species.mc9nr.feather <\/span><\/code><code><span class=\"code-snippet_outer\">--annotations_fname motifs-v9-nr.hgnc-m0.001-o0.0.tbl <\/span><\/code><code><span class=\"code-snippet_outer\">--expression_mtx_fname sample.loom <\/span><\/code><code><span class=\"code-snippet_outer\">--mode <span class=\"code-snippet__string\">\"dask_multiprocessing\"<\/span> <\/span><\/code><code><span class=\"code-snippet_outer\">--output reg.csv <\/span><\/code><code><span class=\"code-snippet_outer\">--num_workers <span class=\"code-snippet__number\">3<\/span> <\/span><\/code><code><span class=\"code-snippet_outer\">--mask_dropouts<\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<section style=\"text-align: left;justify-content: flex-start;margin-top: 20px;margin-bottom: 10px;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;background-color: rgb(59, 149, 115);min-width: 10%;flex: 0 0 auto;height: auto;align-self: flex-start;\">\n<section style=\"color: rgb(245, 245, 245);text-align: justify;letter-spacing: 1.2px;padding-right: 20px;padding-left: 20px;\" powered-by=\"xiumi.us\">\n<p><strong>\u7b2c\u4e09\u6b65AUCell\uff1a\u8ba1\u7b97\u7ec6\u80de\u4e2d\u7684regulon\u5f97\u5206\uff0c\u9274\u5b9a\u7ec6\u80de\u7684\u72b6\u6001\u53ca\u5176\u8c03\u63a7\u56e0\u5b50<\/strong><\/p>\n<\/section>\n<\/section>\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=\"r\"><code><span class=\"code-snippet_outer\">pyscenic aucell <\/span><\/code><code><span class=\"code-snippet_outer\">sample.loom <\/span><\/code><code><span class=\"code-snippet_outer\">reg.csv <\/span><\/code><code><span class=\"code-snippet_outer\">--output sample_SCENIC.loom <\/span><\/code><code><span class=\"code-snippet_outer\">--num_workers <span class=\"code-snippet__number\">3<\/span><\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<p>\u7ecf\u8fc7\u8fd9\u4e09\u6b65\uff0c\u6211\u4eec\u80fd\u5f97\u5230sample_SCENIC.loom\u6587\u4ef6\uff0c\u4e4b\u540e\u5c31\u53ef\u4ee5\u5bfc\u5165R\u5e76\u7ed3\u5408Seurat\u5bf9\u8c61\u8fdb\u884c\u70ed\u56fe\u5206\u6790\u4e86\u3002\u6211\u4eec\u5148\u6765\u770b\u4e00\u4e0b\u6587\u7ae0\u91cc\u5448\u73b0\u7684\u6548\u679c\u662f\u600e\u6837\u7684\u5427~<\/p>\n<\/section>\n<section style=\"font-size: 12px;line-height: 0;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<section style=\"line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.4842592592592593\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-08-11_\u300c\u8f6c\u300dpySCENIC\u5bf9\u5355\u7ec6\u80de\u8f6c\u5f55\u56e0\u5b50\u5206\u6790\u53ef\u89c6\u5316\uff08\u4e0a\uff09\/1_zqwa9ysBMyYpuQFfVAYWhghtt8fnTw.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSSibtO4W6uSCfpGmYia6GTh9SyUWXWELGbLfFVVhjDBu8s0u2zqwa9ysBMyYpuQFfVAYWhghtt8fnTw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"font-size: 12px;line-height: 0;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p>#\u56fe\u7247\u6765\u6e90\uff1a\u300aSingle-cell RNA sequencing highlights the role of inflammatory cancer-associated fibroblasts in bladder urothelial carcinoma\u300b<br \/><\/p>\n<p><br \/><\/p>\n<p>\u4e0a\u6e38\u5904\u7406\u5c31\u662f\u8fd9\u6837\u5566\uff0c\u4e0b\u4e00\u7bc7\u63a8\u9001\u91cc\u6211\u4eec\u5c06\u4ecb\u7ecdR\u7684\u53ef\u89c6\u5316\u5185\u5bb9\uff0c\u5927\u5bb6\u611f\u5174\u8da3\u7684\u6b22\u8fce\u671f\u5f85\u4e00\u4e0b~<\/p>\n<p><br \/><\/p>\n<\/section>\n<section style=\"display: flex;flex-flow: row;margin: 10px 0% 20px;text-align: left;justify-content: flex-start;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;align-self: flex-start;line-height: 0;\">\n<section style=\"text-align: right;margin-right: 0%;margin-bottom: -20px;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 8px;height: 20px;vertical-align: top;overflow: hidden;border-width: 0px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 241, 224);\"><svg viewbox=\"0 0 1 1\" 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14px;line-height: 1.8;letter-spacing: 2px;\">\n<p>\u5355\u7ec6\u80de\u76f8\u5173\u5206\u6790\u5185\u5bb9\u53ef\u4ee5\u5c1d\u8bd5\u4f7f\u7528\u672c\u516c\u53f8\u65b0\u5f00\u53d1\u7684\u4e91\u5e73\u53f0\u751f\u7269\u4fe1\u606f\u5206\u6790\u5c0f\u5de5\u5177\uff0c\u4e0d\u7528\u4ee3\u7801\u5c31\u80fd\u50bb\u74dc\u5f0f\u5b8c\u6210\u5206\u6790\uff0c\u6b22\u8fce\u5927\u5bb6\u6765\u5c1d\u8bd5\u54df\uff01<\/p>\n<p>http:\/\/www.biocloudservice.com\/home.html<\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"border-bottom: 2px solid rgb(0, 150, 136);text-align: left;font-size: 14px;\" powered-by=\"xiumi.us\">\n<p>\u70b9\u51fb\u201c\u9605\u8bfb\u539f\u6587\u201d\u8fdb\u5165\u7f51\u5740<\/p>\n<\/section>\n<section style=\"margin-left: 8%;margin-right: 8%;line-height: 1.1em;\" powered-by=\"xiumi.us\">\n<section style=\"width: 0px;display: inline-block;vertical-align: top;border-top: 1em solid rgb(0, 150, 136);border-left: 0.8em solid 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{"id":56371,"date":"2024-06-16T17:35:36","date_gmt":"2024-06-16T09:35:36","guid":{"rendered":"http:\/\/www.biocloudservice.com\/wordpress\/?p=56371"},"modified":"2024-06-16T17:35:36","modified_gmt":"2024-06-16T09:35:36","slug":"pyscenic%e5%af%b9%e5%8d%95%e7%bb%86%e8%83%9e%e8%bd%ac%e5%bd%95%e5%9b%a0%e5%ad%90%e5%88%86%e6%9e%90%e5%8f%af%e8%a7%86%e5%8c%96%ef%bc%88%e4%b8%8a%ef%bc%89-2","status":"publish","type":"post","link":"http:\/\/www.biocloudservice.com\/wordpress\/?p=56371","title":{"rendered":"pySCENIC\u5bf9\u5355\u7ec6\u80de\u8f6c\u5f55\u56e0\u5b50\u5206\u6790\u53ef\u89c6\u5316\uff08\u4e0a\uff09"},"content":{"rendered":"

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data={\"mp\":\"\u751f\u4fe1\u679c\",\"title\":\"pySCENIC\u5bf9\u5355\u7ec6\u80de\u8f6c\u5f55\u56e0\u5b50\u5206\u6790\u53ef\u89c6\u5316\uff08\u4e0a\uff09\",\"time\":\"2023-08-11 19:00:25\",\"timeStamp\":\"1691751625\"};\n<\/script><br \/>\n<body><\/p>\n<div class=\"rich_media\">\n<h1 class=\"rich_media_title\" id=\"activity-name\"><a href=\"http:\/\/mp.weixin.qq.com\/s?__biz=Mzg3OTg3MjQyNg==&mid=2247491420&idx=2&sn=103f38057dd9ef0282f9705cd8d6d6e9&chksm=cf7c8f99f80b068f48fca63e0336a5f5e8d0bda67ac9881a59a4ddbe2dff9175de765a1a735e#rd\" target=\"_blank\" rel=\"noopener\">pySCENIC\u5bf9\u5355\u7ec6\u80de\u8f6c\u5f55\u56e0\u5b50\u5206\u6790\u53ef\u89c6\u5316\uff08\u4e0a\uff09<\/a><\/h1>\n<div id=\"meta_content\" class=\"rich_media_meta_list\"><span class=\"rich_media_meta rich_media_meta_text\">\u5927\u6d77\u54e5 <\/span><span class=\"rich_media_meta rich_media_meta_nickname\" id=\"profileBt\"><a href=\"javascript:void(0);\" class=\"wx_tap_link js_wx_tap_highlight weui-wa-hotarea\" 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row;margin: -9px 0% 5px;justify-content: flex-start;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;line-height: 0;align-self: flex-start;border-width: 0px;margin-top: 5px;margin-left: 7px;\">\n<section style=\"text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 2px;height: 10px;vertical-align: top;overflow: hidden;background-color: rgb(59, 149, 115);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<section style=\"text-align: center;margin: -6px 0% 4px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 10px;height: 2px;vertical-align: top;overflow: hidden;background-color: rgb(59, 149, 115);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;line-height: 0;border-width: 0px;margin-left: 4px;\">\n<section style=\"text-align: center;margin-top: -4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 9px;height: 9px;vertical-align: top;overflow: hidden;border-width: 2px;border-radius: 47px;border-style: solid;border-color: rgb(59, 149, 115);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;min-width: 10%;flex: 0 0 auto;height: auto;\">\n<section style=\"margin-right: 0%;margin-left: 0%;text-align: center;transform: translate3d(-1px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"color: rgb(59, 149, 115);font-size: 19px;padding-right: 11px;padding-left: 11px;line-height: 1;text-align: justify;\">\n<p style=\"text-align: left;text-wrap: wrap;\"><strong>\u70b9\u51fb\u84dd\u5b57 \u5173\u6ce8\u6211\u4eec<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;line-height: 0;flex: 0 0 0%;height: auto;\">\n<section style=\"text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 16px;height: 12px;vertical-align: top;overflow: hidden;background-color: rgb(59, 149, 115);padding-right: 2px;padding-left: 2px;\">\n<section style=\"justify-content: center;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"text-align: center;transform: translate3d(3px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 0px;height: 0px;vertical-align: top;overflow: hidden;border-style: solid;border-width: 0px 0px 4px 4px;border-color: rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgb(59, 149, 115);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<p>SCENIC(Single-Cell rEgulatory Network Inference and Clustering)\u662f\u4e00\u4e2a\u57fa\u4e8e\u5171\u8868\u8fbe\u548cmotif\u5206\u6790\uff0c\u7528\u4e8e\u8ba1\u7b97\u5355\u7ec6\u80de\u8f6c\u5f55\u7ec4\u6570\u636e\u57fa\u56e0\u8c03\u63a7\u7f51\u7edc\u91cd\u5efa\u53ca\u7ec6\u80de\u72b6\u6001\u9274\u5b9a\u7684\u65b9\u6cd5\uff0c\u53ef\u4ee5\u7b80\u5355\u7406\u89e3\u4e3a\u5355\u7ec6\u80de\u8f6c\u5f55\u56e0\u5b50\u5206\u6790\u3002<\/p>\n<p><br \/><\/p>\n<p>\u5b98\u65b9\u6559\u7a0bhttps:\/\/github.com\/aertslab\/SCENIC<\/p>\n<p>\u8fd9\u91cc\u4f7f\u7528python\u7248\u672c\u7684pyscenic\u548cR\u53ef\u89c6\u5316\u76f8\u7ed3\u5408\u7684\u65b9\u6cd5\uff0c\u5229\u7528\u5355\u7ec6\u80de\u6ce8\u91ca\u5b8c\u6574\u7684Seurat\u5bf9\u8c61\uff0c\u5f97\u5230\u4e0d\u540c\u7ec4\u522b\u548c\u4e0d\u540c\u7ec6\u80de\u7c7b\u578b\u4e2d\u9ad8\u8868\u8fbe\u7684\u8f6c\u5f55\u56e0\u5b50\u70ed\u56fe\u3002<\/p>\n<p><br \/><\/p>\n<p>\u6ce8\u610f\uff1a1\u3001SCENIC\u6570\u636e\u5e93\u652f\u6301\u7684\u7269\u79cd\u5305\u62ec\u4eba\u7c7b\u3001\u5c0f\u9f20\u548c\u679c\u8747\uff0c\u5982\u679c\u7814\u7a76\u5176\u4ed6\u7269\u79cd\u9700\u8981\u624b\u52a8\u6784\u5efaRcisTarget databases<\/p>\n<p>2\u3001SCENIC\u5bf9\u7535\u8111\u8981\u6c42\u8f83\u5927\u3001\u8017\u65f6\u957f\uff0c\u6700\u597d\u5728\u670d\u52a1\u5668\u4e2d\u8fd0\u884c\u3002\u5982\u6211\u4eec\u5e38\u89c1\u7684PBMC\u6570\u636e\u5e93\u76841w\u4e2a\u7ec6\u80de\u5728\u670d\u52a1\u5668\u4e2d\u8fd0\u884c\u9700\u8981\u5360\u7528CPU\u7ea6\u4e24\u4e2a\u5c0f\u65f6\u3001\u6d88\u801760G\u5de6\u53f3\u7684\u5185\u5b58\u3002<\/p>\n<p><br \/><\/p>\n<\/section>\n<section style=\"margin: 10px 0%;display: flex;flex-flow: row;text-align: center;justify-content: center;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;line-height: 0;margin-right: -23px;z-index: 2;\">\n<section style=\"\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 16px;height: 12px;vertical-align: top;overflow: hidden;background-color: rgb(231, 215, 173);padding-right: 2px;padding-left: 2px;\">\n<section style=\"justify-content: center;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"transform: translate3d(3px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 0px;height: 0px;vertical-align: top;overflow: hidden;border-style: solid;border-width: 0px 0px 4px 4px;border-color: rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgb(231, 215, 173);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;background-color: rgb(245, 241, 224);flex: 0 0 auto;align-self: flex-start;margin-top: 6px;min-width: 10%;height: auto;\">\n<section style=\"margin: 8px 0% 3px;\" powered-by=\"xiumi.us\">\n<section style=\"color: rgb(59, 149, 115);font-size: 17px;padding-right: 15px;padding-left: 15px;letter-spacing: 0px;text-align: justify;\">\n<p><strong>#\u8868\u8fbe\u77e9\u9635<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\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=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8868\u8fbe\u77e9\u9635<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">\u9996\u5148\u5728R\u91cc\u5c06Seurat\u5bf9\u8c61\u7684\u8868\u8fbe\u91cf\u77e9\u9635\u8f93\u51fa\u4e3acsv\u6587\u4ef6<\/span><\/code><code><span class=\"code-snippet_outer\">write.csv(t(as.matrix(sce@assays$RNA@counts)),<\/span><\/code><code><span class=\"code-snippet_outer\"> file = <span class=\"code-snippet__string\">\"count.csv\"<\/span>) <\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#pyscenic\u7684\u8f93\u5165\u6587\u4ef6\u662f\u884c\u4e3a\u57fa\u56e0\u540d\uff0c\u5217\u4e3a\u7ec6\u80deID\u7684\u77e9\u9635\uff0c\u6240\u4ee5\u5728seurat\u5bf9\u8c61\u4e2d\u5bfc\u51fa\u77e9\u9635\u7684\u65f6\u5019\u8bb0\u5f97\u8f6c\u7f6e\u4e00\u4e0b\u54e6~<\/span><\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<section style=\"margin: 10px 0%;display: flex;flex-flow: row;text-align: center;justify-content: center;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;line-height: 0;margin-right: -23px;z-index: 2;\">\n<section style=\"\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 16px;height: 12px;vertical-align: top;overflow: hidden;background-color: rgb(231, 215, 173);padding-right: 2px;padding-left: 2px;\">\n<section style=\"justify-content: center;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"transform: translate3d(3px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 0px;height: 0px;vertical-align: top;overflow: hidden;border-style: solid;border-width: 0px 0px 4px 4px;border-color: rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgb(231, 215, 173);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;background-color: rgb(245, 241, 224);flex: 0 0 auto;align-self: flex-start;margin-top: 6px;min-width: 10%;height: auto;\">\n<section style=\"margin: 8px 0% 3px;\" powered-by=\"xiumi.us\">\n<section style=\"color: rgb(59, 149, 115);font-size: 17px;padding-right: 15px;padding-left: 15px;letter-spacing: 0px;text-align: justify;\">\n<p><strong>#\u683c\u5f0f\u8f6c\u6362<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\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<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=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u683c\u5f0f\u8f6c\u6362<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">\u518d\u5728linux\u73af\u5883\u5199\u4e00\u4e2apython\u811a\u672c\uff08csv2loom.py\uff09\uff0c\u5c06csv\u8f6c\u6362\u4e3aloom\u6587\u4ef6<\/span><\/code><code><span class=\"code-snippet_outer\">import os, sys<\/span><\/code><code><span class=\"code-snippet_outer\">os.getcwd()<\/span><\/code><code><span class=\"code-snippet_outer\">os.listdir(os.getcwd()) <\/span><\/code><code><span class=\"code-snippet_outer\"><br \/><\/span><\/code><code><span class=\"code-snippet_outer\">import loompy as lp;<\/span><\/code><code><span class=\"code-snippet_outer\">import numpy as np;<\/span><\/code><code><span class=\"code-snippet_outer\">import scanpy as sc;<\/span><\/code><code><span class=\"code-snippet_outer\">x=sc.read_csv(<span class=\"code-snippet__string\">\"count.csv\"<\/span>);<\/span><\/code><code><span class=\"code-snippet_outer\">row_attrs = {<span class=\"code-snippet__string\">\"Gene\"<\/span>: np.array(x.var_names),};<\/span><\/code><code><span class=\"code-snippet_outer\">col_attrs = {<span class=\"code-snippet__string\">\"CellID\"<\/span>: np.array(x.obs_names)};<\/span><\/code><code><span class=\"code-snippet_outer\">lp.create(<span class=\"code-snippet__string\">\"sample.loom\"<\/span>,x.X.transpose(),row_attrs,col_attrs)<\/span><\/code><code><span class=\"code-snippet_outer\"><br \/><\/span><\/code><code><span class=\"code-snippet_outer\">\u5982\u679c\u63d0\u524d\u914d\u7f6e\u597d\u4e86pyscenic\u73af\u5883<\/span><\/code><code><span class=\"code-snippet_outer\">conda activate pyscenic<\/span><\/code><code><span class=\"code-snippet_outer\">python csv2loom.py<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8fd9\u4e00\u6b65\u8fd0\u884c\u53ef\u80fd\u9700\u8981\u4e00\u6bb5\u65f6\u95f4\uff0c\u53ef\u4ee5\u4f7f\u7528\u201dnohup &\u201d\u547d\u4ee4\u6302\u540e\u53f0\u54e6\u3002\u8fd0\u884c\u7ed3\u675f\u540e\u5c31\u5f97\u5230\u4e86\u6211\u4eec\u9700\u8981\u7684loom\u6587\u4ef6\u3002<\/span><\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<section style=\"margin: 10px 0%;display: flex;flex-flow: row;text-align: center;justify-content: center;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;line-height: 0;margin-right: -23px;z-index: 2;\">\n<section style=\"\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 16px;height: 12px;vertical-align: top;overflow: hidden;background-color: rgb(231, 215, 173);padding-right: 2px;padding-left: 2px;\">\n<section style=\"justify-content: center;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: 50%;align-self: flex-start;flex: 0 0 auto;\">\n<section style=\"margin-top: 4px;margin-right: 0%;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 3px;height: 3px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 155px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 245, 245);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"transform: translate3d(3px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 0px;height: 0px;vertical-align: top;overflow: hidden;border-style: solid;border-width: 0px 0px 4px 4px;border-color: rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgba(255, 255, 255, 0) rgb(231, 215, 173);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;background-color: rgb(245, 241, 224);flex: 0 0 auto;align-self: flex-start;margin-top: 6px;min-width: 10%;height: auto;\">\n<section style=\"margin: 8px 0% 3px;\" powered-by=\"xiumi.us\">\n<section style=\"color: rgb(59, 149, 115);font-size: 17px;padding-right: 15px;padding-left: 15px;letter-spacing: 0px;text-align: justify;\">\n<p><strong>#\u6587\u4ef6\u51c6\u5907<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\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=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u6587\u4ef6\u51c6\u5907<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">\u8fd0\u884cpyscenic\u4e4b\u524d\u9700\u8981\u5728linux\u63d0\u524d\u4e0b\u8f7d\u597d\u4e09\u4e2a\u6587\u4ef6\uff08\u8fd9\u91cc\u9488\u5bf9\u4eba\u7c7b\u6837\u672c\uff09<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__number\">1<\/span>\u3001hs_hgnc_tfs.txt\uff08\u8f6c\u5f55\u7ec4\u56e0\u5b50\u5217\u8868\uff09<\/span><\/code><code><span class=\"code-snippet_outer\">https:\/\/github.com\/aertslab\/pySCENIC\/blob\/master\/resources\/hs_hgnc_tfs.txt<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__number\">2<\/span>\u3001hg19-tss-centered-<span class=\"code-snippet__number\">10<\/span>kb-<span class=\"code-snippet__number\">7<\/span>species.mc9nr.feather\uff08reference\u6570\u636e\u5e93\uff09<\/span><\/code><code><span class=\"code-snippet_outer\">https:\/\/resources.aertslab.org\/cistarget\/databases\/homo_sapiens\/hg19\/refseq_r45\/mc9nr\/gene_based\/hg19-tss-centered-<span class=\"code-snippet__number\">10<\/span>kb-<span class=\"code-snippet__number\">7<\/span>species.mc9nr.feather<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__number\">3<\/span>\u3001motifs-v9-nr.hgnc-m0.001-o0.0.tbl\uff08TF\u6ce8\u91ca\uff09<\/span><\/code><code><span class=\"code-snippet_outer\">https:\/\/resources.aertslab.org\/cistarget\/motif2tf\/motifs-v9-nr.hgnc-m0.001-o0.0.tbl<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u4e0b\u8f7d\u540e\u8bb0\u5f97\u7528md5\u6838\u5bf9\u54e6<\/span><\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<p>\u63a5\u4e0b\u6765\u5c31\u53ef\u4ee5\u6b63\u5f0f\u5f00\u59cbpyscenic\u5566<\/p>\n<\/section>\n<section style=\"text-align: left;justify-content: flex-start;margin-top: 20px;margin-bottom: 10px;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;background-color: rgb(59, 149, 115);min-width: 10%;flex: 0 0 auto;height: auto;align-self: flex-start;\">\n<section style=\"color: rgb(245, 245, 245);text-align: justify;letter-spacing: 1.2px;padding-right: 20px;padding-left: 20px;\" powered-by=\"xiumi.us\">\n<p><strong>\u7b2c\u4e00\u6b65grn\uff1a\u8fc7\u6ee4\u5171\u8868\u8fbe\u77e9\u9635\uff0c\u5c06target\u683c\u5f0f\u5316\u4e3a\u5171\u8868\u8fbe\u6a21\u5757<\/strong><\/p>\n<\/section>\n<\/section>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">pyscenic grn <\/span><\/code><code><span class=\"code-snippet_outer\">--num_workers <span class=\"code-snippet__number\">20<\/span> <span class=\"code-snippet__comment\">#\u6700\u597d\u8bbe\u7f6e\u4e00\u4e0b\uff0c\u5426\u5219\u53ef\u80fd\u4f1a\u628a\u670d\u52a1\u5668CPU\u5360\u6ee1<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">--output adj.sample.tsv <\/span><\/code><code><span class=\"code-snippet_outer\">--method grnboost2 <\/span><\/code><code><span class=\"code-snippet_outer\">sample.loom <\/span><\/code><code><span class=\"code-snippet_outer\">hs_hgnc_tfs.txt<\/span><\/code><\/pre>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"text-align: left;justify-content: flex-start;margin-top: 20px;margin-bottom: 10px;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;background-color: rgb(59, 149, 115);min-width: 10%;flex: 0 0 auto;height: auto;align-self: flex-start;\">\n<section style=\"color: rgb(245, 245, 245);text-align: justify;letter-spacing: 1.2px;padding-right: 20px;padding-left: 20px;\" powered-by=\"xiumi.us\">\n<p><strong>\u7b2c\u4e8c\u6b65cistarget\uff1a\u57fa\u4e8eDNA-motif\u7684\u5206\u6790\uff0c\u9009\u62e9\u6f5c\u5728\u7684\u76f4\u63a5\u7ed3\u5408\u7684target\uff08regulons\uff09<\/strong><\/p>\n<\/section>\n<\/section>\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=\"r\"><code><span class=\"code-snippet_outer\">pyscenic ctx <\/span><\/code><code><span class=\"code-snippet_outer\">adj.sample.tsv <\/span><\/code><code><span class=\"code-snippet_outer\">hg19-tss-centered-<span class=\"code-snippet__number\">10<\/span>kb-<span class=\"code-snippet__number\">7<\/span>species.mc9nr.feather <\/span><\/code><code><span class=\"code-snippet_outer\">--annotations_fname motifs-v9-nr.hgnc-m0.001-o0.0.tbl <\/span><\/code><code><span class=\"code-snippet_outer\">--expression_mtx_fname sample.loom <\/span><\/code><code><span class=\"code-snippet_outer\">--mode <span class=\"code-snippet__string\">\"dask_multiprocessing\"<\/span> <\/span><\/code><code><span class=\"code-snippet_outer\">--output reg.csv <\/span><\/code><code><span class=\"code-snippet_outer\">--num_workers <span class=\"code-snippet__number\">3<\/span> <\/span><\/code><code><span class=\"code-snippet_outer\">--mask_dropouts<\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<section style=\"text-align: left;justify-content: flex-start;margin-top: 20px;margin-bottom: 10px;display: flex;flex-flow: row;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;background-color: rgb(59, 149, 115);min-width: 10%;flex: 0 0 auto;height: auto;align-self: flex-start;\">\n<section style=\"color: rgb(245, 245, 245);text-align: justify;letter-spacing: 1.2px;padding-right: 20px;padding-left: 20px;\" powered-by=\"xiumi.us\">\n<p><strong>\u7b2c\u4e09\u6b65AUCell\uff1a\u8ba1\u7b97\u7ec6\u80de\u4e2d\u7684regulon\u5f97\u5206\uff0c\u9274\u5b9a\u7ec6\u80de\u7684\u72b6\u6001\u53ca\u5176\u8c03\u63a7\u56e0\u5b50<\/strong><\/p>\n<\/section>\n<\/section>\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=\"r\"><code><span class=\"code-snippet_outer\">pyscenic aucell <\/span><\/code><code><span class=\"code-snippet_outer\">sample.loom <\/span><\/code><code><span class=\"code-snippet_outer\">reg.csv <\/span><\/code><code><span class=\"code-snippet_outer\">--output sample_SCENIC.loom <\/span><\/code><code><span class=\"code-snippet_outer\">--num_workers <span class=\"code-snippet__number\">3<\/span><\/span><\/code><\/pre>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<p>\u7ecf\u8fc7\u8fd9\u4e09\u6b65\uff0c\u6211\u4eec\u80fd\u5f97\u5230sample_SCENIC.loom\u6587\u4ef6\uff0c\u4e4b\u540e\u5c31\u53ef\u4ee5\u5bfc\u5165R\u5e76\u7ed3\u5408Seurat\u5bf9\u8c61\u8fdb\u884c\u70ed\u56fe\u5206\u6790\u4e86\u3002\u6211\u4eec\u5148\u6765\u770b\u4e00\u4e0b\u6587\u7ae0\u91cc\u5448\u73b0\u7684\u6548\u679c\u662f\u600e\u6837\u7684\u5427~<\/p>\n<\/section>\n<section style=\"font-size: 12px;line-height: 0;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<section style=\"line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.4842592592592593\" data-s=\"300,640\" src=\"\u56fe\u7247\/\u751f\u4fe1\u679c_2023-08-11_\u300c\u8f6c\u300dpySCENIC\u5bf9\u5355\u7ec6\u80de\u8f6c\u5f55\u56e0\u5b50\u5206\u6790\u53ef\u89c6\u5316\uff08\u4e0a\uff09\/1_zqwa9ysBMyYpuQFfVAYWhghtt8fnTw.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/YHGRXkSxjSSibtO4W6uSCfpGmYia6GTh9SyUWXWELGbLfFVVhjDBu8s0u2zqwa9ysBMyYpuQFfVAYWhghtt8fnTw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"font-size: 12px;line-height: 0;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<section style=\"font-size: 14px;line-height: 1.8;letter-spacing: 2px;padding-right: 10px;padding-left: 10px;\" powered-by=\"xiumi.us\">\n<p>#\u56fe\u7247\u6765\u6e90\uff1a\u300aSingle-cell RNA sequencing highlights the role of inflammatory cancer-associated fibroblasts in bladder urothelial carcinoma\u300b<br \/><\/p>\n<p><br \/><\/p>\n<p>\u4e0a\u6e38\u5904\u7406\u5c31\u662f\u8fd9\u6837\u5566\uff0c\u4e0b\u4e00\u7bc7\u63a8\u9001\u91cc\u6211\u4eec\u5c06\u4ecb\u7ecdR\u7684\u53ef\u89c6\u5316\u5185\u5bb9\uff0c\u5927\u5bb6\u611f\u5174\u8da3\u7684\u6b22\u8fce\u671f\u5f85\u4e00\u4e0b~<\/p>\n<p><br \/><\/p>\n<\/section>\n<section style=\"display: flex;flex-flow: row;margin: 10px 0% 20px;text-align: left;justify-content: flex-start;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 0 0 0%;height: auto;align-self: flex-start;line-height: 0;\">\n<section style=\"text-align: right;margin-right: 0%;margin-bottom: -20px;margin-left: 0%;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 8px;height: 20px;vertical-align: top;overflow: hidden;border-width: 0px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(245, 241, 224);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<section style=\"text-align: center;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 16px;height: 20px;vertical-align: top;overflow: hidden;border-width: 0px;border-radius: 21px 21px 0px 0px;border-style: none;border-color: rgb(62, 62, 62);background-color: rgb(231, 215, 173);\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;background-color: rgb(245, 241, 224);flex: 100 100 0%;align-self: flex-start;height: auto;border-right: 0px none rgb(62, 62, 62);border-top-right-radius: 12px;overflow: hidden;box-shadow: rgb(231, 215, 173) 0px 6px 0px;\">\n<section style=\"margin: 20px 0% 30px;\" powered-by=\"xiumi.us\">\n<section style=\"padding-right: 23px;padding-left: 23px;text-align: justify;font-size: 14px;line-height: 1.8;letter-spacing: 2px;\">\n<p>\u5355\u7ec6\u80de\u76f8\u5173\u5206\u6790\u5185\u5bb9\u53ef\u4ee5\u5c1d\u8bd5\u4f7f\u7528\u672c\u516c\u53f8\u65b0\u5f00\u53d1\u7684\u4e91\u5e73\u53f0\u751f\u7269\u4fe1\u606f\u5206\u6790\u5c0f\u5de5\u5177\uff0c\u4e0d\u7528\u4ee3\u7801\u5c31\u80fd\u50bb\u74dc\u5f0f\u5b8c\u6210\u5206\u6790\uff0c\u6b22\u8fce\u5927\u5bb6\u6765\u5c1d\u8bd5\u54df\uff01<\/p>\n<p>http:\/\/www.biocloudservice.com\/home.html<\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"border-bottom: 2px solid rgb(0, 150, 136);text-align: left;font-size: 14px;\" powered-by=\"xiumi.us\">\n<p>\u70b9\u51fb\u201c\u9605\u8bfb\u539f\u6587\u201d\u8fdb\u5165\u7f51\u5740<\/p>\n<\/section>\n<section style=\"margin-left: 8%;margin-right: 8%;line-height: 1.1em;\" powered-by=\"xiumi.us\">\n<section style=\"width: 0px;display: inline-block;vertical-align: top;border-top: 1em solid rgb(0, 150, 136);border-left: 0.8em solid transparent !important;border-right: 0.8em solid transparent !important;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<p style=\"margin-bottom: 24px;\"><br \/><\/p>\n<p style=\"display: none;margin-bottom: 24px;\"><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>pySCENIC\u5bf9\u5355\u7ec6\u80de\u8f6c\u5f55\u56e0\u5b50\u5206\u6790\u53ef\u89c6\u5316\uff08\u4e0a\uff09 \u5927\u6d77\u54e5 \u751f\u4fe1\u679c […]<\/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\/56371"}],"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=56371"}],"version-history":[{"count":1,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/56371\/revisions"}],"predecessor-version":[{"id":56373,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/56371\/revisions\/56373"}],"wp:attachment":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=56371"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=56371"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=56371"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}