GLAM2MASK(1)

📦 version 1064, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble, ubuntu questing, ubuntu resolute, ubuntu stonking

💅 GLAM2MASK — bestie's guide to the glam2 manual ✨

okay so this is the manual page for glam2mask, from the glam2 Manual. sit down, grab a boba, we're masking motifs 🧚

🌸 NAME 🌸

glam2mask — masks a GLAM2 motif in sequences 🎀

✨ SYNOPSIS ✨

glam2mask [options] my_motif.glam2 my_seqs.fa

like that's it. that's the whole vibe. 💖

🦋 DESCRIPTION 🦋

so basically glam2mask takes a glam2 motif and masks it out of your sequences, so that the weaker motifs hiding underneath can finally get their moment. main character energy for the understudies, honestly. 👑

the way masking works: every residue that lines up with a key position</> gets swapped out for the symbol ´x´. boom, gone, hidden.

and here's the iconic part — if you run glam2 and glam2mask alternately, several times in a row, you can find the strongest motif, then the second-strongest, then the third-strongest, etc., etc. in a set of sequences. it's giving ✨layered discovery✨. no cap. 🔥

💅 OPTIONS (DEFAULT SETTINGS) 💅

defaults, bestie. we love a good default. 🫶

  • -o — the output file. if you don't say anything, it's just stdout. classic.
  • -x — the mask character. default is x. so you could change it, but like… x is fine? 🙈

🎀 SEE ALSO 🎀

go bother these queens next:

the full Hypertext documentation of GLAM2 lives online at http://bioinformatics.org.au/glam2/, or, if you're feeling local, right on this computer in /usr/share/doc/glam2/. iykyk. 📚✨

⭐ REFERENCE ⭐

if you use GLAM2, pls cite this, it's the polite thing to do fr fr:

MC Frith, NFW Saunders, B Kobe, TL Bailey (2008) Discovering sequence motifs with arbitrary insertions and deletions, PLoS Computational Biology (in press).

👑 AUTHORS 👑

  • Martin Frith — Author of GLAM2.
  • Timothy Bailey — Author of GLAM2.
  • Charles Plessy <plessy@debian.org> — Formatted this manpage in DocBook XML for the Debian distribution. (the manpage glow-up queen 💖)

the source code and the documentation of GLAM2 are released in the public domain. free as a butterfly, literally. 🦋

and that's the whole page, bestie 🫶 this was GLAM2 1056, dated 05/19/2008. go mask something iconic 💅✨🌸

📦 where this page comes from