log2CPM {PathoStat} | R Documentation |
Compute log2(counts per mil reads) and library size for each sample
log2CPM(qcounts, lib.size = NULL)
qcounts |
quantile normalized counts |
lib.size |
default is colsums(qcounts) |
list containing log2(quantile counts per mil reads) and library sizes
example_data_dir <- system.file("example/data", package = "PathoStat") pathoreport_file_suffix <- "-sam-report.tsv" datlist <- readPathoscopeData(example_data_dir, pathoreport_file_suffix) countdat <- datlist$countdata lcpm <- log2CPM(countdat)