FASTAQ-REPLACE_BASES(1)

📦
version 3.17.0 · 5 versions
, in ubuntu resolute, ubuntu stonking

💅 fastaq_replace_bases — from the fastaq manual (section 1, babes)

okay so bestie, you know how sometimes your sequence file has a letter in it that you simply cannot with, and you need a different letter there instead? yeah. that's literally this whole entire program. it swaps one letter for another letter. every single time it shows up. no cap. 🦋

✨ NAME ✨

fastaq_replace_bases — swaps out every single occurrence of one letter and puts a different letter in its place 🎀

🌸 DESCRIPTION 🌸

here's the vibe, the whole usage line, exact as it comes:

fastaq_replace_bases <infile> <outfile> <old> <new>

and what it does? it replaces all occurrences of one letter with another. all of them. not some. not "the ones it feels like". all. iconic behavior honestly 👑

🫶 positional arguments:

  • infile — the name of the input file, aka the thing you're reading from, your source material, the moment before 💖
  • outfile — the name of the output file, aka where the glow-up gets written down ✨
  • old — the base that's getting replaced. she's leaving. we're saying goodbye 😭
  • new — replace with this letter. she's the new main character, the replacement, the upgrade 🌈

💅 options:

  • -h, --help — shows this help message and then dips out (exits). that's it. that's the option. the only one. periodt.
lowkey a tiny program with big opinions: feeds in a file, swaps your letter everywhere it appears, drops the result in the outfile. four arguments, zero drama. 💀

💜 sign-off 💜

this page is from fastaq_replace_bases version 3.17.0, dated January 2026, and it lives in the User Commands corner of your manual. go forth and replace some bases bestie, you got this 🧚🌸

📦 where this page comes from