loadRef: loadRef

In quevedor2/CCLid: Compares Cancer Cell Line Genotypes Against Pharmacogenomic Datasets

Description

Wrapper to load in all the reference matrices and annotate them with groups, as well as calculate variance

Usage

loadRef(
  PDIR = NULL,
  analysis = "baf",
  rm.gne = FALSE,
  bin.size = 1e+06,
  verbose = FALSE,
  meta.df = NULL,
  ...
)

Arguments

PDIR	Directory for download data
analysis	Only support BAF at the moment
rm.gne	Remove gCSI from the analysis (default=FALSE)
bin.size	Bin size (default=1e6)
verbose	Verbose
meta.df	Cell line metadata, accessible from CCLid::ccl_table
...	Extra param

Value

List containing "ref"=reference BAF matrix and "var"=list containing variance for bin-sizes

quevedor2/CCLid documentation built on July 15, 2020, 4:05 a.m.