Vfilter_v4: Function to filter variants, v4

In chenweng1991/scMitoTracing: R package for Regulatory multi-omics with Deep Mitochondrial mutation profiling

Function to filter variants, v4

Description

This function allows you to filter variants

Usage

Vfilter_v4(
  InputSummary = VariantsGTSummary,
  Min_Cells = 2,
  Max_Count_perCell = 2,
  QualifyCellCut = 10
)

Arguments

InputSummary	The GTSummary file read in by function redeemR.read
Min_Cells	Default 2, A qualified variant needs the minimum number of cells that have this variant
Max_Count_perCell	Default 2, A qualified variant needs to show at least 2 counts in one cell
QualifyCellCut	Default 10, Minimum depth for a qualified cell
depth	The .depth file by function DepthSummary
Rmvhomo	Boolean (Default F) If true, remove the homozygous variants

Value

this returns feature.list

chenweng1991/scMitoTracing documentation built on July 2, 2024, 8:41 p.m.