AverageExpression()调用内部函数(),把自身的参数传递给它。 # step1: AverageExpression函数是传递变量给PseudobulkExpressionobject<-seurat_obj_Bcell pb.method='average'assays=NULLfeatures=NULLreturn.seurat=TRUEgroup.by='ident'add.ident=NULLslot='data'verbose=TRUEPseudobulkExpression(object=object,pb.method=...
# Dot plots - the size of the dot corresponds to the percentage ofcellsexpressing the feature in each cluster. The color represents the average expression level # 点图(DotPlot)可视化marker基因的表达 DotPlot(pbmc, features = features) + RotatedAxis() # Single cell heatmap of feature expressio...
# How can I calculate expression averages separately for each replicate?cluster.averages<-AverageExpression(pbmc,return.seurat=TRUE,add.ident="replicate")CellScatter(cluster.averages,cell1="CD8_T_rep1",cell2="CD8_T_rep2") # You can also plot heatmaps of these 'in silico' bulk datasets t...
# How can I calculate expression averages separately for each replicate? cluster.averages <- AverageExpression(pbmc, return.seurat = TRUE, add.ident ="replicate") CellScatter(cluster.averages, cell1 ="CD8_T_rep1", cell2 ="CD8_T_rep2") # You can also plot heatmaps of these 'in sili...
cluster.averages <- AverageExpression(pbmc, return.seurat = TRUE, add.ident = "replicate") CellScatter(cluster.averages, cell1 = "CD8_T_rep1", cell2 = "CD8_T_rep2") 代码语言:javascript 复制 # You can also plot heatmaps of these 'in silico' bulk datasets to visualize agreement bet...
Hello, thanks for developing this wonderful visualization package! I have encountered some issues passing the Seurat v5 object to AverageHeatmap() function. Could you please advise how should I pull data from the data layer instead of fr...
The color represents the average expression level DotPlot(pbmc3k.final, features = features) + RotatedAxis() 代码语言:javascript 复制 # Single cell heatmap of feature expression DoHeatmap(subset(pbmc3k.final, downsample = 100), features = features, size = 3) FeaturePlot新增功能 代码语言:ja...
5. DoHeatmap ## Single cell heatmap of feature expressionDoHeatmap(subset(pbmc3k.final,downsample=100),features=features,size=3) 新绘图函数 DimPlot # DimPlot replaces TSNEPlot, PCAPlot, etc. In addition, it will plot either 'umap', 'tsne', or# 'pca' by default, in that orderDimPlot...
A heatmap is generated showing the average of the expression of each gene per cluster, with the possibility to select groups of genes for further exploration. For each selected gene, a uniform manifold approximation and projection (UMAP) plot showing its expression in each cell is generated, as...
1# Dot plots - the size of the dot corresponds to the percentage of cells expressing the feature2# in each cluster. The color represents the average expression level3DotPlot(pbmc, features = features) + Rotate 1# Single cell heatmap of feature expression2DoHeatmap(subset(pbmc, downsample =...