get_base_fasta: Get reference base in FASTA at genomic position

In TearsWillFall/ULPwgs: An implementation of a wrapper for estimating tumor fraction in ultra-low-pass whole genome sequencing (ULP-WGS) for cell-free DNA in GNU/Unix based systems

Get reference base in FASTA at genomic position

Description

Get reference base in FASTA at genomic position

Usage

get_base_fasta(
  fasta = NULL,
  fai = NULL,
  gpos = NULL,
  sort = TRUE,
  header = TRUE,
  threads = 1
)

Arguments

fasta	PATH to FAI file.
fai	PATH to FAI file.
gpos	Genomic position.
sort	Sort genomic positions alphanumerically. Default TRUE
threads	Number of threads to use. Default 1

Details

gpos_object structure: time: System time at read time fasta_origin: PATH to fasta origin file body: Gpos body

Value

A fasta_object

TearsWillFall/ULPwgs documentation built on April 18, 2024, 3:45 p.m.