BOWTIE2-INSPECT-S(1)

📦
version 2.5.5 · 7 versions
, in ubuntu stonking

💅 bowtie2-inspect-s — the manual page, bestie edition

okay so real quick: this is the man page for bowtie2-inspect-s, part of the bowtie2 family. she's a little extraction gremlin that pulls info straight out of a bowtie2 index. let's go 🦋

✨ NAME ✨

bowtie2-inspect-s — extracts information from a bowtie2 index

like, it inspects. that's the whole job. and she eats it every time 👑

🌸 SYNOPSIS 🌸

bowtie2-inspect [options]* <bt2_base>

🎀 DESCRIPTION 🎀

Bowtie 2 version 2.5.5 by Ben Langmead (langmea@cs.jhu.edu, www.cs.jhu.edu/~langmea). icon behavior, honestly.

the argument bestie

  • <bt2_base> — this is the bt2 filename minus the trailing .1.bt2 / .2.bt2. so you hand her the stem, not the whole thing. periodt.

what she does by default (no flags, just vibes)

By default, prints FASTA records of the indexed nucleotide sequences to standard out.

but wait, there's range:

  • with -n, just prints names 🏷️
  • with -s, just prints a summary of the index parameters and sequences 📋

so like, pick your girl. FASTA dump, names only, or the lil summary. all three are valid, all three are slay.

💖 OPTIONS 💖

  • -a, --across <int> — Number of characters across in FASTA output (default: 60). yes bestie you can change the width, she's not gonna gatekeep 🌈
  • -n, --names — Print reference sequence names only. just the names. nothing else. minimalism is a lifestyle ✨
  • -s, --summary — Print summary incl. ref names, lengths, index properties. the whole lore drop 📖
  • -o, --output — Save output to filename (default stdout). catch it in a file instead of letting it spill onto your terminal 🫶
  • -v, --verbose — Verbose output (for debugging). when you need the tea ☕ she will tell you everything
  • -h, --help — print this and message quit. the classic escape hatch 💀
ngl if you're confused, just hit -h. she will literally explain herself. no cap.

and that's the whole page, bestie — nothing hidden, nothing skipped, we ate and left no crumbs 🍓

this was the bowtie2-inspect-s 2.5.5 manual page, dated February 2026, mwah 💋 go inspect something iconic 👑💜

📦 where this page comes from