Estimate Motif Variability Using ChromVAR
runChromVAR(obj, input.mat = c("pmat", "bmat"),
genome = BSgenome.Hsapiens.UCSC.hg19, min.count = 10,
species = "Homo sapiens")A snap object.
Input matrix used for chromVAR analysis c("pmat", "bmat").
BSgenome object that contains the sequence for the corresponding genome (i.e. BSgenome.Hsapiens.UCSC.hg19).
Min count for features. Features of count lower than min.count will be filtered [10].
Species or jaspar code used by 'getJasparMotifs'to get the motif database ["Homo sapiens"].
Return a matrix object that contains the cell-by-motif matrix