normalize_data: Normalizing log data

In hyochoi/Scissors:

Description

This function reduces the variation associated with sequentcing depths remaining after a log transformation. The output is the main data object for the downstream shape change detection miscGlobal.

Usage

normalize_data(datalog, rawmat, exonset, loop = TRUE, center.type = 1,
  smoothness = 0.7, draw.plot = FALSE, main = "Gene", ...)

Arguments

datalog	log-transformed data matrix (e.g. object from logtransform_data)
rawmat	raw coverage data matrix
exonset	exon/intron annotation matrix from process_data
loop	logical, whether to repeat correcting variation by fitting smooth curve. Default is TRUE.
draw.plot	logical, whether to plot variation with respect to overall expression with fitted curve. Default is FALSE
main	title for a plot. Default is "Gene".

hyochoi/Scissors documentation built on July 3, 2019, 4:48 a.m.