read_pileup: Read reference genome fasta file

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

Read reference genome fasta file

Description

Read reference genome fasta file

Usage

read_pileup(
  pileup = NULL,
  header = TRUE,
  sep = "\t",
  rename = TRUE,
  sort = TRUE,
  threads = 1
)

Arguments

sort	Sort genomic positions alphanumerically. Default TRUE
threads	Number of threads to use. Default 1
fasta	PATH to FASTA file
fai	PATH to FAI file. If not given assumes same directory as fasta file

Details

fasta object structure: time: System time at read time fasta_origin: PATH to fasta origin file body: Fasta body

Value

A fasta_object

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