praneet1988 / analyze_cytof_using_seurat Goto Github PK

Hi there,

I have a large CyTOF dataset (10s of millions of cells), with immune lineages sub-clustered in CATALYST by FlowSOM. Each immune lineage data and subclustering is stored in a separate single cell experiment (sce) object. I have another similar CyTOF dataset (~10 million cells) that I want to map onto the FlowSOM clustering of the first dataset. I was just wondering if this is at all possible using Seurat on a regular laptop?

Thanks very much.

Hello

I am pursuing your tutorial but I get this error

> fcs_1 <- fsApply(fcs_raw1, function(x, cofactor = 5){
+   
+   colnames(x) <- panel_fcs_raw1$desc
+   
+   expr <- exprs(x)
+   
+   expr <- asinh(expr[, c(panel_fcs_raw1$desc)] / cofactor)
+   
+   exprs(x) <- expr
+   
+   x
+   
+ })
Error in expr[, c(panel_fcs_raw1$desc)] : subscript out of bounds

Please can you help me with this?