extractSignaturePercent: Estimate signature percents
In ProfessionalFarmer/loonR: Common function in bioinformatics analysis

extractSignaturePercent

R Documentation

Estimate signature percents

Description

Estimate signature percents

Usage

extractSignaturePercent(
  chr = NULL,
  Start_Position = NULL,
  End_Position = NULL,
  ref_base = NULL,
  alt_base = NULL,
  Sample_Barcode = NULL,
  signatures.ref = NULL,
  ref.genome = 38,
  tri.counts.method = "genome"
)

Arguments

`signatures.ref`	注意列名Default is deconstructSigs::signatures.cosmic Signature * 96 context, colnames should be the same as signatures.nature2013 dataset or signatures.cosmic
`ref.genome`	Default is 38
`tri.counts.method`	'default', 'genome' or 'exome' or 'exome2genome'. Default is does not result in further normalization. genome is : the input data frame is normalized by number of times each trinucleotide context is observed in the genome