getCNDrifts: getCnDrifts

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

Description

Gets the drift GRanges and genomic fraction of drift for any pair of cell lines from different datasets given L2R data

Usage

getCNDrifts(
  ref.l2r,
  alt.l2r,
  fdat,
  seg.id,
  raw.id,
  cell.ids,
  verbose = TRUE,
  meta.df,
  ...
)

Arguments

ref.l2r	Matrix of L2R data of genomic bins by samples for reference dataset
alt.l2r	Matrix of L2R data of genomic bins by samples for comparison dataset
fdat	segment data
seg.id	element ID of ref.l2r that specifies the segment L2Rs
raw.id	element ID of ref.l2r that specifies the raw probeset L2Rs
cell.ids	All cell line IDs to compare drift between
verbose	Verbose
meta.df	Cell line metadata, accessible from CCLid::ccl_table
...	Extra param

Value

CN drift object

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