BEADS(1)

💖 BEADS 💖

okay bestie, welcome to the beads manual page — it lives in section 1 of the General Commands Manual, so it's a command you just run in your shell like a normal person 💅

✨ NAME ✨

beads — 2D gel electrophoresis spot detection 🧚

like… it finds the spots. on the gel. that's the whole vibe. no cap.

🎀 SYNOPSIS 🎀

beads [--inverse --steps -p parameter file]... -i INPUT -o OUTPUT

🌸 DESCRIPTION 🌸

so basically beads detects and quantifies spots in the INPUT gel image file. that's its whole main character moment ✨

• -i — the path to the gel image input file 🖼️ (this is your input, bestie, you gotta have it)
• -o — the path to the output file 📝
• -p, --param — the path to the parameter file ⚙️
• --inverse — inverses the pixel intensity in the source gel image 🔄 it literally has to be "true" or "false", and "true" is the default. so if you type anything else, that's on you 😭
• --steps — saves each image computed by beads at each step of the process into TIFF files 🗂️ lowkey obsessed with this one because you can use it to tune your parameter file. so like… you can see exactly what it's doing at every step. very demure, very mindful.

💾 OUTPUT 💾

beads produces several file formats as output: xml, txt, jpg, tif and svg 🌈

to choose the output file format, just write the corresponding extension in the output filename OUTPUT. that's it. that's the whole trick. iykyk ✨

👑 AUTHORS 👑

beads was written by Michel Zivy <michel.zivy@moulon.inra.fr> and Olivier Langella <olivier.langella@moulon.inra.fr>. icons fr fr 🫶

📜 COPYRIGHT 📜

Copyright CeCILL

🔍 SEE ALSO 🔍

the beads homepage, bestie:

http://pappso.inra.fr/bioinfo/beads/index.php

and that's the tea 🍓 this manual for beads is from 2009 Dec 5 — yeah she's been around a minute, but she still slays 💅 mwah, go detect some spots 💖