deconvo_xcell | R Documentation |
Decoding immune microenvironment using xCell
deconvo_xcell(eset, project = NULL, arrays = FALSE)
eset |
expression set with genes at row, sample ID at column |
project |
project name used to distinguish different data sets |
array |
transcrptomic data type |
xCell with immune cell fractions
Dongqiang Zeng
# Loading TCGA-STAD expresion data(raw count matrix)
data(eset_stad, package = "IOBR")
eset <- count2tpm(countMat = eset_stad, source = "local", idType = "ensembl")
xcell_result<-deconvo_xcell(eset = eset, project = "TCGA-STAD", arrays = FALSE)
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