SAMTOOLS.PL(1)

📦 version 1.22.1, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble, ubuntu questing, ubuntu resolute, ubuntu stonking

Okay bestie, welcome to samtools.pl 💖 (it's in the User Commands section, so it's a tool you run from your terminal) ✨

✨ NAME ✨

samtools.pl — helper script for SAMtools 🎀

🌸 SYNOPSIS 🌸

samtools.pl <command> [<arguments>]

💅 DESCRIPTION 💅

okay so samtools.pl is a helper script that comes with SAMtools, and it's lowkey a whole vibe 🦋

Here are the commands it knows, no cap:

  • varFilter — filtering SNPs and short indels 🔥
  • pileup2fq — generate fastq from pileup -c' ✨
  • showALEN — print alignment length (ALEN) following CIGAR 🧚

👑 AUTHOR 👑

Heng Li <lh3@sanger.ac.uk> is the one who wrote the software, so he's the real MVP 🫶

Andreas Tille wrote this manpage for the Debian distribution 🌈 and it's giving open-to-everyone energy, because it can be used for any other usage of the program. iykyk 🍓

samtools.pl 1.2, December 2015 💜 that's the version and date of this source, bestie. Go slay your terminal 🧚✨

📦 where this page comes from