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style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u4eca\u5929\u5c0f\u5e08\u59b9\u4f7f\u7528\u7684\u662fSeuratData\u4e2d\u7684\u6570\u636e\u3002SeuratData\u662fSeurat\u8f6f\u4ef6\u5305\u63d0\u4f9b\u7684\u4e00\u4e2a\u6570\u636e\u96c6\u4ed3\u5e93\uff0c\u5305\u542b\u4e86\u8bb8\u591a\u516c\u5f00\u7684\u5355\u7ec6\u80deRNA\u6d4b\u5e8f\u6570\u636e\u96c6\u3002SeuratData\u53ef\u4ee5\u901a\u8fc7Seurat\u8f6f\u4ef6\u5305\u4e2d\u7684\u51fd\u6570\u8fdb\u884c\u4e0b\u8f7d\u548c\u4f7f\u7528\uff0c\u4e5f\u53ef\u4ee5\u901a\u8fc7SeuratData\u5305\u8fdb\u884c\u8bbf\u95ee\u3002SeuratData\u5305\u63d0\u4f9b\u4e86\u4e00\u4e2a\u7b80\u5355\u7684\u63a5\u53e3\uff0c\u53ef\u4ee5\u901a\u8fc7\u51fd\u6570\u8c03\u7528\u5feb\u901f\u52a0\u8f7dSeuratData\u4e2d\u7684\u6570\u636e\u96c6\uff0c\u5e76\u8fdb\u884c\u6570\u636e\u63a2\u7d22\u3001\u53ef\u89c6\u5316\u548c\u5206\u6790\u3002\u6b64\u5916\uff0cSeuratData\u8fd8\u63d0\u4f9b\u4e86\u4e00\u4e9b\u793a\u4f8b\u4ee3\u7801\u548c\u6559\u7a0b\uff0c\u5e2e\u52a9\u7528\u6237\u4e86\u89e3Seurat\u8f6f\u4ef6\u5305\u7684\u5404\u79cd\u529f\u80fd\uff0c\u4ece\u800c\u66f4\u597d\u5730\u5e94\u7528\u4e8e\u81ea\u5df1\u7684\u7814\u7a76\u4e2d\u3002<\/p>\n<\/section>\n<section 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style=\"width: 0px;display: inline-block;border-top: 0.6em solid rgb(247, 221, 223);border-left: 0.6em solid rgb(247, 221, 223);border-bottom: 0.6em solid transparent !important;border-right: 0.6em 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<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 100 100 0%;height: auto;align-self: flex-start;background-color: rgb(255, 229, 231);padding: 6px 6px 6px 14px;\">\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><strong>#\u5bfc\u5165\u9700\u8981\u7684R\u5305<\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">library(ggplot2)<\/span><\/code><code><span class=\"code-snippet_outer\">library(patchwork)<\/span><\/code><code><span class=\"code-snippet_outer\">library(dplyr)<\/span><\/code><code><span class=\"code-snippet_outer\">library(SeuratData)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u5bfc\u5165\u6570\u636e\u96c6<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">InstallData(<span class=\"code-snippet__string\">\"stxBrain\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">df <- LoadData(<span class=\"code-snippet__string\">\"stxBrain\"<\/span>, type = <span class=\"code-snippet__string\">\"anterior1\"<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u901a\u8fc7\u7ed8\u5236\u5355\u4e2a\u7ec6\u80de\u5728\u7a7a\u95f4\u4e2d\u68c0\u6d4b\u5230\u7684RNA\u5206\u5b50\u6570\u7684\u5c0f\u63d0\u7434\u56fe\uff0c\u89c2\u5bdf\u6570\u636e\u5206\u5e03\u60c5\u51b5\u3002<br \/><\/p>\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=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u7ed8\u5236\u5173\u4e8enCount_Spatial\u7684\u5c0f\u63d0\u7434\u56fe<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#nCount_Spatial:\u5355\u4e2a\u7ec6\u80de\u5728\u7a7a\u95f4\u4e2d\u68c0\u6d4b\u5230\u7684RNA\u5206\u5b50\u6570<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">VlnPlot(df, features = <span class=\"code-snippet__string\">\"nCount_Spatial\"<\/span>, pt.size = <span class=\"code-snippet__number\">0.1<\/span>,cols =<span class=\"code-snippet__string\">\"#56B6A0\"<\/span> ) + NoLegend()<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"0.6872586872586872\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_wkltOAFD6ulmpM8FC8RkokHUtee59Q.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VF7zC2jBfWgP2v1qIcZae7caAewkltOAFD6ulmpM8FC8RkokHUtee59Q\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1036\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u53ef\u4ee5\u770b\u5230\u6570\u636e\u975e\u5e38\u5206\u6563\uff0c\u9700\u8981\u8fdb\u884c\u6807\u51c6\u5316\u3002\u8fd9\u91cc\u5c0f\u5e08\u59b9\u91c7\u7528\u7684\u662fSCTransform\u8fdb\u884c\u6807\u51c6\u5316\u3002SCTransform\u662f\u4e00\u4e2a\u7528\u4e8e\u5355\u7ec6\u80deRNA\u6d4b\u5e8f\u6570\u636e\u7684\u6279\u6b21\u6821\u6b63\u548c\u57fa\u56e0\u8868\u8fbe\u503c\u53d8\u6362\u7684\u51fd\u6570\uff0c\u5b83\u53ef\u4ee5\u901a\u8fc7\u6d88\u9664\u6279\u6b21\u6548\u5e94\u548c\u6280\u672f\u566a\u58f0\uff0c\u63d0\u9ad8\u4e0d\u540c\u6837\u672c\u4e4b\u95f4\u7684\u53ef\u6bd4\u6027\u548c\u51c6\u786e\u6027\uff0c\u4ece\u800c\u66f4\u597d\u5730\u6316\u6398\u5355\u7ec6\u80de\u6570\u636e\u4e2d\u7684\u751f\u7269\u5b66\u4fe1\u606f\u3002<\/p>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u6784\u5efa\u57fa\u56e0\u8868\u8fbe\u7684\u6b63\u5219\u5316\u8d1f\u4e8c\u9879\u5f0f\u6a21\u578b<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">df <- SCTransform(df, assay = <span class=\"code-snippet__string\">\"Spatial\"<\/span>, verbose = <span class=\"code-snippet__literal\">FALSE<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u63a5\u4e0b\u6765\u5c31\u53ef\u4ee5\u4f7f\u7528SpatialFeaturePlot\u51fd\u6570\u7ed8\u5236\u5355\u7ec6\u80de\u6570\u636e\u96c6\u4e2d\u6bcf\u4e2a\u7ec6\u80de\u5728\u7a7a\u95f4\u4e2d\u7684\u5206\u5e03\u56fe\uff0c\u5176\u4e2dfeatures\u53c2\u6570\u8868\u793a\u9700\u8981\u7ed8\u5236\u7684\u7279\u5f81\u3002SpatialFeaturePlot\u53ef\u4ee5\u5c06\u5355\u7ec6\u80de\u7a7a\u95f4\u8f6c\u5f55\u6570\u636e\u4e2d\u7684\u4f4d\u7f6e\u4fe1\u606f\u4e0eRNA\u8868\u8fbe\u4fe1\u606f\u76f8\u7ed3\u5408\uff0c\u5c06\u6bcf\u4e2a\u7ec6\u80de\u5728\u7ec4\u7ec7\u7ed3\u6784\u4e2d\u7684\u4f4d\u7f6e\u548cRNA\u8868\u8fbe\u4fe1\u606f\u4ee5\u6563\u70b9\u56fe\u6216\u70ed\u56fe\u7684\u65b9\u5f0f\u5448\u73b0\u51fa\u6765\uff0c\u65b9\u4fbf\u6211\u4eec\u76f4\u89c2\u5730\u89c2\u5bdf\u548c\u6bd4\u8f83\u4e0d\u540c\u7ec6\u80de\u7c7b\u578b\u7684\u7a7a\u95f4\u5206\u5e03\u6a21\u5f0f\u548c\u57fa\u56e0\u8868\u8fbe\u60c5\u51b5\u3002<br \/><\/p>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#SpatialFeaturePlot\u51fd\u6570\u7528\u4e8e\u7ed8\u5236\u5355\u7ec6\u80de\u6570\u636e\u96c6\u4e2d\u6bcf\u4e2a\u7ec6\u80de\u5728\u7a7a\u95f4\u4e2d\u7684\u5206\u5e03\u56fe<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">SpatialFeaturePlot(df, features = <span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__string\">\"Hpca\"<\/span>, <span class=\"code-snippet__string\">\"Ttr\"<\/span>))<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"0.6419047619047619\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_gFiarZu3KTxsJGlTRa9KkickOQEKNA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VFy2qbrPzHqQqqB9oFphWsyw1ufvgFiarZu3KTxsJGlTRa9KkickOQEKNA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1050\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u8fd8\u53ef\u4ee5\u8c03\u6574\u6591\u70b9\u7684\u5927\u5c0f\u3001\u900f\u660e\u5ea6\u7b49\u63d0\u9ad8\u7ec4\u7ec7\u56fe\u50cf\u7684\u53ef\u89c6\u5316\u6548\u679c<br \/><\/p>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8c03\u6574\u6591\u70b9\u7684\u5927\u5c0f\u548c\u900f\u660e\u5ea6<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">SpatialFeaturePlot(df, features = <span class=\"code-snippet__string\">\"Ttr\"<\/span>, pt.size.factor = <span class=\"code-snippet__number\">1<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"1.0498154981549817\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_BzUtj8noX3QPGMMdjVKIfmcX2IBBzw.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VFUuzGDUKdfMTVtUfUmZRc8a1fBzUtj8noX3QPGMMdjVKIfmcX2IBBzw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"542\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u964d\u4f4e\u4f4e\u8868\u8fbe\u5f0f\u70b9\u7684\u900f\u660e\u5ea6<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">SpatialFeaturePlot(df, features = <span class=\"code-snippet__string\">\"Ttr\"<\/span>, alpha = <span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">0.1<\/span>, <span class=\"code-snippet__number\">1<\/span>))<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"1.0183356840620592\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_5iaed5oxUoPs0ahNB4R3UbORZzHrlw.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VFibTPvC5D4EVERz09gs4b7JXLtc5iaed5oxUoPs0ahNB4R3UbORZzHrlw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"709\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u4e0escRNA-seq\u5206\u6790\u7684\u5de5\u4f5c\u6d41\u7a0b\u76f8\u540c\uff0c\u7ee7\u7eed\u5bf9RNA\u8868\u8fbe\u6570\u636e\u8fdb\u884c\u964d\u7ef4\u548c\u805a\u7c7b<br \/><\/p>\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\">#\u5bf9RNA\u8868\u8fbe\u6570\u636e\u8fdb\u884c\u964d\u7ef4\u548c\u805a\u7c7b<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">df <- RunPCA(df, assay = <span class=\"code-snippet__string\">\"SCT\"<\/span>, verbose = <span class=\"code-snippet__literal\">FALSE<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">df <- FindNeighbors(df, reduction = <span class=\"code-snippet__string\">\"pca\"<\/span>, dims = <span class=\"code-snippet__number\">1<\/span>:<span class=\"code-snippet__number\">30<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">df <- FindClusters(df, verbose = <span class=\"code-snippet__literal\">FALSE<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">df <- RunUMAP(df, reduction = <span class=\"code-snippet__string\">\"pca\"<\/span>, dims = <span class=\"code-snippet__number\">1<\/span>:<span class=\"code-snippet__number\">30<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u5bf9\u805a\u7c7b\u7ed3\u679c\u8fdb\u884c\u53ef\u89c6\u5316<\/p>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u53ef\u89c6\u5316\u805a\u7c7b\u7ed3\u679c<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">DimPlot(df, reduction = <span class=\"code-snippet__string\">\"umap\"<\/span>, label = <span class=\"code-snippet__literal\">TRUE<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"0.7086720867208672\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_UGibKWlrbGu6kApFauOf7GD3P5a0bg.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VFgC0eksODE46eRZA3g0ia3WAqCUUGibKWlrbGu6kApFauOf7GD3P5a0bg\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"738\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u8fd8\u53ef\u4ee5\u4f7f\u7528SpatialDimPlot()\u5728\u539f\u672c\u7684\u56fe\u50cf\u4e0a\u53e0\u52a0\u805a\u7c7b\u7ed3\u679c<\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">SpatialDimPlot(df, label = <span class=\"code-snippet__literal\">TRUE<\/span>, label.size = <span class=\"code-snippet__number\">3<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"0.8112745098039216\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_BQ9rdNduOibicTvUtr4Up69149xnYA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VF5N62ZwngHqfjZS9iaPpxIOUXBYKBQ9rdNduOibicTvUtr4Up69149xnYA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"816\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u8fd8\u53ef\u4ee5\u53ea\u7a81\u51fa\u5355\u4e2a\u7c07\u7684\u7ec6\u80de\u7684\u4f4d\u7f6e\u60c5\u51b5<br \/><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">SpatialDimPlot(df, cells.highlight = CellsByIdentities(object = df, idents = <span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">0<\/span>,<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">2<\/span>,<span class=\"code-snippet__number\">3<\/span>,<span class=\"code-snippet__number\">4<\/span>,<span class=\"code-snippet__number\">5<\/span>,<span class=\"code-snippet__number\">6<\/span>,<span class=\"code-snippet__number\">7<\/span>,<span class=\"code-snippet__number\">8<\/span>,<span class=\"code-snippet__number\">9<\/span>)), facet.highlight = <span class=\"code-snippet__literal\">TRUE<\/span>, ncol = <span class=\"code-snippet__number\">5<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"0.48859315589353614\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_iciaIlnvUYpo3QH5khMlJnD38VvORQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VFnKJmx9btlsLjnAxJPIC1cpm11aiciaIlnvUYpo3QH5khMlJnD38VvORQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1052\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p style=\"white-space: 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rgb(249, 172, 172);box-shadow: rgb(249, 172, 172) 0px 0px 5px 3px;\">\n<section style=\"text-align: center;transform: translate3d(2px, 0px, 0px);margin-top: -14px;margin-bottom: -14px;\" powered-by=\"xiumi.us\">\n<p>{ \u70b9\u51fb\u84dd\u5b57\uff0c\u5173\u6ce8\u6211\u4eec }<\/p>\n<\/section>\n<\/section>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\">\u5355\u7ec6\u80de\u7a7a\u95f4\u8f6c\u5f55\u7ec4\uff08single-cell spatial transcriptomics\uff09\u662f\u4e00\u79cd\u65b0\u5174\u7684\u5355\u7ec6\u80deRNA\u6d4b\u5e8f\u6280\u672f\uff0c\u5b83\u53ef\u4ee5\u5c06\u7ec6\u80de\u7684RNA\u5206\u5e03\u4fe1\u606f\u4e0e\u5176\u5f62\u6001\u548c\u4f4d\u7f6e\u4fe1\u606f\u76f8\u7ed3\u5408\uff0c\u5b9e\u73b0\u5bf9\u7ec6\u80de\u5728\u7a7a\u95f4\u4e0a\u7684\u5b9a\u4f4d\u548c\u5206\u6790\u3002\u4f20\u7edf\u7684\u5355\u7ec6\u80deRNA\u6d4b\u5e8f\u6280\u672f\u53ea\u80fd\u83b7\u5f97\u6bcf\u4e2a\u7ec6\u80de\u7684RNA\u6d4b\u5e8f\u6570\u636e\uff0c\u800c\u65e0\u6cd5\u83b7\u53d6\u5b83\u4eec\u5728\u7ec4\u7ec7\u4e2d\u7684\u4f4d\u7f6e\u4fe1\u606f\u3002\u800c\u5355\u7ec6\u80de\u7a7a\u95f4\u8f6c\u5f55\u7ec4\u6280\u672f\u5219\u53ef\u4ee5\u901a\u8fc7\u7a7a\u95f4\u6210\u50cf\u6280\u672f\uff08\u5982\u5149\u5b66\u6216\u8d28\u8c31\u6210\u50cf\uff09\u5c06\u7ec6\u80de\u7684RNA\u5206\u5e03\u4fe1\u606f\u6620\u5c04\u5230\u7ec4\u7ec7\u7ed3\u6784\u4e0a\uff0c\u5b9e\u73b0\u5bf9\u5355\u4e2a\u7ec6\u80de\u5728\u7ec4\u7ec7\u6216\u5668\u5b98\u4e2d\u7684\u4f4d\u7f6e\u548c\u7a7a\u95f4\u5173\u7cfb\u7684\u7cbe\u786e\u5b9a\u4f4d\u548c\u5206\u6790\u3002<br \/><\/p>\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u5bf9\u5355\u7ec6\u80de\u7a7a\u95f4\u8f6c\u5f55\u8fdb\u884c\u53ef\u89c6\u5316\u53ef\u4ee5\u5e2e\u52a9\u6211\u4eec\u66f4\u597d\u5730\u7406\u89e3\u7ec6\u80de\u5728\u7ec4\u7ec7\u7ed3\u6784\u4e2d\u7684\u5206\u5e03\u3001\u7c7b\u578b\u548c\u529f\u80fd\u7b49\u4fe1\u606f\u3002\u5355\u7ec6\u80de\u7a7a\u95f4\u8f6c\u5f55\u6280\u672f\u53ef\u4ee5\u63d0\u4f9b\u6bcf\u4e2a\u7ec6\u80de\u5728\u7ec4\u7ec7\u7ed3\u6784\u4e2d\u7684\u4f4d\u7f6e\u548cRNA\u8868\u8fbe\u4fe1\u606f\uff0c\u800c\u53ef\u89c6\u5316\u6280\u672f\u53ef\u4ee5\u5c06\u8fd9\u4e9b\u4fe1\u606f\u4ee5\u56fe\u5f62\u5316\u7684\u65b9\u5f0f\u5448\u73b0\u51fa\u6765\uff0c\u4f7f\u5f97\u6570\u636e\u66f4\u52a0\u76f4\u89c2\u3001\u6613\u4e8e\u7406\u89e3\u548c\u89e3\u91ca\u3002\u901a\u8fc7\u7ed8\u5236\u7ec6\u80de\u5728\u7a7a\u95f4\u4e0a\u7684\u5206\u5e03\u56fe\uff0c\u6211\u4eec\u53ef\u4ee5\u4e86\u89e3\u7ec6\u80de\u5728\u7ec4\u7ec7\u7ed3\u6784\u4e2d\u7684\u5206\u5e03\u60c5\u51b5\uff0c\u63a2\u7a76\u7ec6\u80de\u7c7b\u578b\u548c\u529f\u80fd\u5728\u7ec4\u7ec7\u7ed3\u6784\u4e2d\u7684\u7a7a\u95f4\u5206\u5e03\u6a21\u5f0f\uff0c\u4ee5\u53ca\u4e0d\u540c\u7ec6\u80de\u7c7b\u578b\u4e4b\u95f4\u7684\u7a7a\u95f4\u5173\u7cfb\uff0c\u8fd8\u53ef\u4ee5\u6bd4\u8f83\u4e0d\u540c\u57fa\u56e0\u5728\u4e0d\u540c\u7ec6\u80de\u7c7b\u578b\u548c\u4f4d\u7f6e\u4e0a\u7684\u8868\u8fbe\u6a21\u5f0f\u3002<\/p>\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u4eca\u5929\u5c0f\u5e08\u59b9\u4f7f\u7528\u7684\u662fSeuratData\u4e2d\u7684\u6570\u636e\u3002SeuratData\u662fSeurat\u8f6f\u4ef6\u5305\u63d0\u4f9b\u7684\u4e00\u4e2a\u6570\u636e\u96c6\u4ed3\u5e93\uff0c\u5305\u542b\u4e86\u8bb8\u591a\u516c\u5f00\u7684\u5355\u7ec6\u80deRNA\u6d4b\u5e8f\u6570\u636e\u96c6\u3002SeuratData\u53ef\u4ee5\u901a\u8fc7Seurat\u8f6f\u4ef6\u5305\u4e2d\u7684\u51fd\u6570\u8fdb\u884c\u4e0b\u8f7d\u548c\u4f7f\u7528\uff0c\u4e5f\u53ef\u4ee5\u901a\u8fc7SeuratData\u5305\u8fdb\u884c\u8bbf\u95ee\u3002SeuratData\u5305\u63d0\u4f9b\u4e86\u4e00\u4e2a\u7b80\u5355\u7684\u63a5\u53e3\uff0c\u53ef\u4ee5\u901a\u8fc7\u51fd\u6570\u8c03\u7528\u5feb\u901f\u52a0\u8f7dSeuratData\u4e2d\u7684\u6570\u636e\u96c6\uff0c\u5e76\u8fdb\u884c\u6570\u636e\u63a2\u7d22\u3001\u53ef\u89c6\u5316\u548c\u5206\u6790\u3002\u6b64\u5916\uff0cSeuratData\u8fd8\u63d0\u4f9b\u4e86\u4e00\u4e9b\u793a\u4f8b\u4ee3\u7801\u548c\u6559\u7a0b\uff0c\u5e2e\u52a9\u7528\u6237\u4e86\u89e3Seurat\u8f6f\u4ef6\u5305\u7684\u5404\u79cd\u529f\u80fd\uff0c\u4ece\u800c\u66f4\u597d\u5730\u5e94\u7528\u4e8e\u81ea\u5df1\u7684\u7814\u7a76\u4e2d\u3002<\/p>\n<\/section>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row nowrap;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;align-self: flex-start;flex: 0 0 auto;min-width: 5%;height: auto;\">\n<section style=\"justify-content: flex-start;display: flex;flex-flow: row nowrap;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;align-self: flex-start;flex: 0 0 auto;background-color: rgb(189, 216, 245);min-width: 5%;height: auto;padding: 6px 15px;\">\n<section style=\"color: rgb(255, 255, 255);text-align: justify;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><strong>01<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"margin-bottom: -6px;transform: scale(0.66);transform-origin: left top;\" powered-by=\"xiumi.us\">\n<section style=\"line-height: 1;transform: translate3d(12px, 0px, 0px);\">\n<section style=\"width: 0px;display: inline-block;border-top: 0.6em solid rgb(247, 221, 223);border-left: 0.6em solid rgb(247, 221, 223);border-bottom: 0.6em solid transparent !important;border-right: 0.6em 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<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 100 100 0%;height: auto;align-self: flex-start;background-color: rgb(255, 229, 231);padding: 6px 6px 6px 14px;\">\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><strong>#\u5bfc\u5165\u9700\u8981\u7684R\u5305<\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">library(ggplot2)<\/span><\/code><code><span class=\"code-snippet_outer\">library(patchwork)<\/span><\/code><code><span class=\"code-snippet_outer\">library(dplyr)<\/span><\/code><code><span class=\"code-snippet_outer\">library(SeuratData)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u5bfc\u5165\u6570\u636e\u96c6<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">InstallData(<span class=\"code-snippet__string\">\"stxBrain\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">df <- LoadData(<span class=\"code-snippet__string\">\"stxBrain\"<\/span>, type = <span class=\"code-snippet__string\">\"anterior1\"<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u901a\u8fc7\u7ed8\u5236\u5355\u4e2a\u7ec6\u80de\u5728\u7a7a\u95f4\u4e2d\u68c0\u6d4b\u5230\u7684RNA\u5206\u5b50\u6570\u7684\u5c0f\u63d0\u7434\u56fe\uff0c\u89c2\u5bdf\u6570\u636e\u5206\u5e03\u60c5\u51b5\u3002<br \/><\/p>\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=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u7ed8\u5236\u5173\u4e8enCount_Spatial\u7684\u5c0f\u63d0\u7434\u56fe<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#nCount_Spatial:\u5355\u4e2a\u7ec6\u80de\u5728\u7a7a\u95f4\u4e2d\u68c0\u6d4b\u5230\u7684RNA\u5206\u5b50\u6570<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">VlnPlot(df, features = <span class=\"code-snippet__string\">\"nCount_Spatial\"<\/span>, pt.size = <span class=\"code-snippet__number\">0.1<\/span>,cols =<span class=\"code-snippet__string\">\"#56B6A0\"<\/span> ) + NoLegend()<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"0.6872586872586872\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_wkltOAFD6ulmpM8FC8RkokHUtee59Q.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VF7zC2jBfWgP2v1qIcZae7caAewkltOAFD6ulmpM8FC8RkokHUtee59Q\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1036\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u53ef\u4ee5\u770b\u5230\u6570\u636e\u975e\u5e38\u5206\u6563\uff0c\u9700\u8981\u8fdb\u884c\u6807\u51c6\u5316\u3002\u8fd9\u91cc\u5c0f\u5e08\u59b9\u91c7\u7528\u7684\u662fSCTransform\u8fdb\u884c\u6807\u51c6\u5316\u3002SCTransform\u662f\u4e00\u4e2a\u7528\u4e8e\u5355\u7ec6\u80deRNA\u6d4b\u5e8f\u6570\u636e\u7684\u6279\u6b21\u6821\u6b63\u548c\u57fa\u56e0\u8868\u8fbe\u503c\u53d8\u6362\u7684\u51fd\u6570\uff0c\u5b83\u53ef\u4ee5\u901a\u8fc7\u6d88\u9664\u6279\u6b21\u6548\u5e94\u548c\u6280\u672f\u566a\u58f0\uff0c\u63d0\u9ad8\u4e0d\u540c\u6837\u672c\u4e4b\u95f4\u7684\u53ef\u6bd4\u6027\u548c\u51c6\u786e\u6027\uff0c\u4ece\u800c\u66f4\u597d\u5730\u6316\u6398\u5355\u7ec6\u80de\u6570\u636e\u4e2d\u7684\u751f\u7269\u5b66\u4fe1\u606f\u3002<\/p>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u6784\u5efa\u57fa\u56e0\u8868\u8fbe\u7684\u6b63\u5219\u5316\u8d1f\u4e8c\u9879\u5f0f\u6a21\u578b<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">df <- SCTransform(df, assay = <span class=\"code-snippet__string\">\"Spatial\"<\/span>, verbose = <span class=\"code-snippet__literal\">FALSE<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u63a5\u4e0b\u6765\u5c31\u53ef\u4ee5\u4f7f\u7528SpatialFeaturePlot\u51fd\u6570\u7ed8\u5236\u5355\u7ec6\u80de\u6570\u636e\u96c6\u4e2d\u6bcf\u4e2a\u7ec6\u80de\u5728\u7a7a\u95f4\u4e2d\u7684\u5206\u5e03\u56fe\uff0c\u5176\u4e2dfeatures\u53c2\u6570\u8868\u793a\u9700\u8981\u7ed8\u5236\u7684\u7279\u5f81\u3002SpatialFeaturePlot\u53ef\u4ee5\u5c06\u5355\u7ec6\u80de\u7a7a\u95f4\u8f6c\u5f55\u6570\u636e\u4e2d\u7684\u4f4d\u7f6e\u4fe1\u606f\u4e0eRNA\u8868\u8fbe\u4fe1\u606f\u76f8\u7ed3\u5408\uff0c\u5c06\u6bcf\u4e2a\u7ec6\u80de\u5728\u7ec4\u7ec7\u7ed3\u6784\u4e2d\u7684\u4f4d\u7f6e\u548cRNA\u8868\u8fbe\u4fe1\u606f\u4ee5\u6563\u70b9\u56fe\u6216\u70ed\u56fe\u7684\u65b9\u5f0f\u5448\u73b0\u51fa\u6765\uff0c\u65b9\u4fbf\u6211\u4eec\u76f4\u89c2\u5730\u89c2\u5bdf\u548c\u6bd4\u8f83\u4e0d\u540c\u7ec6\u80de\u7c7b\u578b\u7684\u7a7a\u95f4\u5206\u5e03\u6a21\u5f0f\u548c\u57fa\u56e0\u8868\u8fbe\u60c5\u51b5\u3002<br \/><\/p>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#SpatialFeaturePlot\u51fd\u6570\u7528\u4e8e\u7ed8\u5236\u5355\u7ec6\u80de\u6570\u636e\u96c6\u4e2d\u6bcf\u4e2a\u7ec6\u80de\u5728\u7a7a\u95f4\u4e2d\u7684\u5206\u5e03\u56fe<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">SpatialFeaturePlot(df, features = <span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__string\">\"Hpca\"<\/span>, <span class=\"code-snippet__string\">\"Ttr\"<\/span>))<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"0.6419047619047619\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_gFiarZu3KTxsJGlTRa9KkickOQEKNA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VFy2qbrPzHqQqqB9oFphWsyw1ufvgFiarZu3KTxsJGlTRa9KkickOQEKNA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1050\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u8fd8\u53ef\u4ee5\u8c03\u6574\u6591\u70b9\u7684\u5927\u5c0f\u3001\u900f\u660e\u5ea6\u7b49\u63d0\u9ad8\u7ec4\u7ec7\u56fe\u50cf\u7684\u53ef\u89c6\u5316\u6548\u679c<br \/><\/p>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8c03\u6574\u6591\u70b9\u7684\u5927\u5c0f\u548c\u900f\u660e\u5ea6<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">SpatialFeaturePlot(df, features = <span class=\"code-snippet__string\">\"Ttr\"<\/span>, pt.size.factor = <span class=\"code-snippet__number\">1<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"1.0498154981549817\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_BzUtj8noX3QPGMMdjVKIfmcX2IBBzw.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VFUuzGDUKdfMTVtUfUmZRc8a1fBzUtj8noX3QPGMMdjVKIfmcX2IBBzw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"542\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u964d\u4f4e\u4f4e\u8868\u8fbe\u5f0f\u70b9\u7684\u900f\u660e\u5ea6<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">SpatialFeaturePlot(df, features = <span class=\"code-snippet__string\">\"Ttr\"<\/span>, alpha = <span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">0.1<\/span>, <span class=\"code-snippet__number\">1<\/span>))<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"1.0183356840620592\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_5iaed5oxUoPs0ahNB4R3UbORZzHrlw.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VFibTPvC5D4EVERz09gs4b7JXLtc5iaed5oxUoPs0ahNB4R3UbORZzHrlw\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"709\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u4e0escRNA-seq\u5206\u6790\u7684\u5de5\u4f5c\u6d41\u7a0b\u76f8\u540c\uff0c\u7ee7\u7eed\u5bf9RNA\u8868\u8fbe\u6570\u636e\u8fdb\u884c\u964d\u7ef4\u548c\u805a\u7c7b<br \/><\/p>\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\">#\u5bf9RNA\u8868\u8fbe\u6570\u636e\u8fdb\u884c\u964d\u7ef4\u548c\u805a\u7c7b<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">df <- RunPCA(df, assay = <span class=\"code-snippet__string\">\"SCT\"<\/span>, verbose = <span class=\"code-snippet__literal\">FALSE<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">df <- FindNeighbors(df, reduction = <span class=\"code-snippet__string\">\"pca\"<\/span>, dims = <span class=\"code-snippet__number\">1<\/span>:<span class=\"code-snippet__number\">30<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">df <- FindClusters(df, verbose = <span class=\"code-snippet__literal\">FALSE<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">df <- RunUMAP(df, reduction = <span class=\"code-snippet__string\">\"pca\"<\/span>, dims = <span class=\"code-snippet__number\">1<\/span>:<span class=\"code-snippet__number\">30<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u5bf9\u805a\u7c7b\u7ed3\u679c\u8fdb\u884c\u53ef\u89c6\u5316<\/p>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u53ef\u89c6\u5316\u805a\u7c7b\u7ed3\u679c<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">DimPlot(df, reduction = <span class=\"code-snippet__string\">\"umap\"<\/span>, label = <span class=\"code-snippet__literal\">TRUE<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"0.7086720867208672\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_UGibKWlrbGu6kApFauOf7GD3P5a0bg.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VFgC0eksODE46eRZA3g0ia3WAqCUUGibKWlrbGu6kApFauOf7GD3P5a0bg\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"738\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u8fd8\u53ef\u4ee5\u4f7f\u7528SpatialDimPlot()\u5728\u539f\u672c\u7684\u56fe\u50cf\u4e0a\u53e0\u52a0\u805a\u7c7b\u7ed3\u679c<\/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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">SpatialDimPlot(df, label = <span class=\"code-snippet__literal\">TRUE<\/span>, label.size = <span class=\"code-snippet__number\">3<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"0.8112745098039216\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_BQ9rdNduOibicTvUtr4Up69149xnYA.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VF5N62ZwngHqfjZS9iaPpxIOUXBYKBQ9rdNduOibicTvUtr4Up69149xnYA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"816\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<p style=\"white-space: normal;\" powered-by=\"xiumi.us\">\u8fd8\u53ef\u4ee5\u53ea\u7a81\u51fa\u5355\u4e2a\u7c07\u7684\u7ec6\u80de\u7684\u4f4d\u7f6e\u60c5\u51b5<br \/><\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">SpatialDimPlot(df, cells.highlight = CellsByIdentities(object = df, idents = <span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">0<\/span>,<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">2<\/span>,<span class=\"code-snippet__number\">3<\/span>,<span class=\"code-snippet__number\">4<\/span>,<span class=\"code-snippet__number\">5<\/span>,<span class=\"code-snippet__number\">6<\/span>,<span class=\"code-snippet__number\">7<\/span>,<span class=\"code-snippet__number\">8<\/span>,<span class=\"code-snippet__number\">9<\/span>)), facet.highlight = <span class=\"code-snippet__literal\">TRUE<\/span>, ncol = <span class=\"code-snippet__number\">5<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;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=\"0.48859315589353614\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_iciaIlnvUYpo3QH5khMlJnD38VvORQ.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEV8wyfQdyzQia3UCaaoDh9VFnKJmx9btlsLjnAxJPIC1cpm11aiciaIlnvUYpo3QH5khMlJnD38VvORQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1052\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p style=\"white-space: normal;\">\u901a\u8fc7\u5c0f\u5e08\u59b9\u4ecb\u7ecd\u7684\u4e00\u952e\u89e3\u9501\u5355\u7ec6\u80de\u7a7a\u95f4\u8f6c\u5f55\u7ec4\u53ef\u89c6\u5316\u7684\u795e\u5947\u6280\u5de7\uff0c\u6211\u4eec\u53ef\u4ee5\u66f4\u597d\u5730\u4e86\u89e3\u5355\u4e2a\u7ec6\u80de\u5728\u7ec4\u7ec7\u7ed3\u6784\u4e2d\u7684\u5206\u5e03\u3001\u7c7b\u578b\u548c\u529f\u80fd\u7b49\u4fe1\u606f\u3002\u901a\u8fc7\u7ed8\u5236\u7ec6\u80de\u5728\u7a7a\u95f4\u4e0a\u7684\u5206\u5e03\u56fe\u8fd8\u53ef\u4ee5\u63a2\u7a76\u7ec6\u80de\u7c7b\u578b\u548c\u529f\u80fd\u5728\u7ec4\u7ec7\u7ed3\u6784\u4e2d\u7684\u7a7a\u95f4\u5206\u5e03\u6a21\u5f0f\u3001\u7a7a\u95f4\u5173\u7cfb\u3002\u8fd9\u5c31\u662f\u4eca\u5929\u5c0f\u5e08\u59b9\u5e26\u6765\u7684\u53ef\u89c6\u5316\u6280\u5de7\u5566\uff5e\u5feb\u70b9\u53bb\u8bd5\u8bd5\u5427\uff01<br \/><\/p>\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"white-space: normal;\">\u8fd8\u6709\u66f4\u591a\u5355\u7ec6\u80de\u5206\u6790\u7684\u5c0f\u5de5\u5177\uff1a\u5355\u7ec6\u80de\u5206\u6790\uff08http:\/\/www.biocloudservice.com\/366\/366.php\uff09\uff0c\u53ef\u4ee5\u76f4\u63a5\u5728\u7ebf\u8f93\u5165\u6570\u636e\uff0c\u5feb\u901f\u5f97\u5230\u8f93\u51fa\u7ed3\u679c\uff01\u5927\u5bb6\u4e00\u8d77\u6765\u4f7f\u7528\u5427\uff5e<\/p>\n<p style=\"white-space: normal;\"><br \/><\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.5555555555555556\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/8_FR3wic4MfRmIDKtUUHZdHrGxiaj1ow.jpg?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_jpg\/oCSOtP61aEWjRWAeR9wicY9JyrK13cNBaaEibns0HMqkENpTUga2VEOTxwbRFR3wic4MfRmIDKtUUHZdHrGxiaj1ow\/640?wx_fmt=jpeg'\" data-type=\"jpeg\" data-w=\"900\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p style=\"white-space: normal;\"><br \/><\/p>\n<\/section>\n<\/section>\n<p style=\"display: none;margin-bottom: 24px;\"><mp-style-type data-value=\"3\"><\/mp-style-type><\/p>\n<p><\/content>\n<\/div>\n<p><\/body><br \/>\n<\/html><\/p>\n","protected":false},"excerpt":{"rendered":"<p>\u4e00\u952e\u89e3\u9501\u5355\u7ec6\u80de\u7a7a\u95f4\u8f6c\u5f55\u7ec4\u53ef\u89c6\u5316\u7684\u795e\u5947\u6280\u5de7\uff01 \u5c0f\u5e08\u59b9 \u751f\u4fe1\u679c 202 […]<\/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\/59005"}],"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=59005"}],"version-history":[{"count":1,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/59005\/revisions"}],"predecessor-version":[{"id":59014,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/59005\/revisions\/59014"}],"wp:attachment":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=59005"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=59005"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=59005"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}