normalizeGeneCounts

Description

Function takes raw counts of NGS data and normalize to CPM, RPKM or TPM.

Usage

normalizeGeneCounts(counts, TxDb, method)

Arguments

counts A data frame with gene ID in rownames and sample ID in colnames

TxDb GenomicFeatures object created from the same gtf as counts object

method Should be "CPM", "RPKM" or "TPM"

Example

CPM <- normalizeCounts(counts, TxDb, method = "CPM")