EvoSig_input: Produce input ccf count matrix for rank estimate

In xinnyuY/EvoSig: Evolutionary dynamics signature extraction

Produce input ccf count matrix for rank estimate

Description

Produce input ccf count matrix for rank estimate

Usage

EvoSig_input(
  Ccube_folder,
  output,
  ccfMatBuild = F,
  post_summary = NA,
  postSummaryBuild = F,
  TCGA = F,
  ICGC = F,
  ccfupper = 1,
  minsample = 30,
  minmutation = 30,
  mindepth = 100,
  typefile = NA,
  matrixtype = "fraction"
)

Arguments

Ccube_folder	Ccube folder
output	output folder path
ccfMatBuild	Specify whether construct ccf count matrix or not
post_summary	specify post summary file path if choose to load from local file
postSummaryBuild	Specify whether construct post summary from scratch or not
ccfupper	CCF upper bound
minsample	set minimum samples needed for a single cancer type

Value

CCF matrix for each cancer type

xinnyuY/EvoSig documentation built on July 22, 2022, 9:43 p.m.