samtools.pl(1)

samtools.pl1

Helper script for samtools

Usage

samtools.pl <command> [<arguments>]

Overview

helper script for SAMtools

Command:

varFilter filtering SNPs and short indels

pileup2fq generate fastq from `pileup -c'

showALEN print alignment length (ALEN) following CIGAR

Releases

Unchanged in 5 releases since Debian 9 (Stretch).

  1. 9–13

Author

THe software was written by Heng Li <[email protected]>

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.

From samtools 1.21-1 in Debian 13 (Trixie). Parsed by carta from the page's man source.