process_pileup: Processing data

In hyochoi/SCISSOR: Shape changes in selecting sample outliers in RNA-seq

Processing data

Description

Processing data

Usage

process_pileup(
  pileupData,
  Ranges,
  logshiftVal = NULL,
  plotNormalization = FALSE,
  ...
)

Arguments

pileupData	a pile-up data matrix obtained from bam files, i.e. base-level raw counts. Columns are samples and rows are genomic positions.
Ranges	an exon annotation for the given gene.
logshiftVal	a pseudo count added to raw counts before the logarithmic transformation. Default is NULL and automatically selects the pseudo count based on the implemented algorithm.
plotNormalization

hyochoi/SCISSOR documentation built on July 6, 2022, 6:59 a.m.