FASTAQ-EXPAND_NUCLEOTIDES(1)

✨ fastaq_expand_nucleotides — bestie edition ✨

okay so real talk, this is the FASTAQ-EXPAND_NUCLEOTIDES(1) page from the User Commands manual and I'm about to make degenerate nucleotides make sense to you in like, one scroll. no cap. 💅

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🌸 NAME 🌸

fastaq_expand_nucleotides — makes every combination of degenerate nucleotides 🧬✨

like, every single one. she's thorough. she's giving completionist energy. 👑

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🦋 DESCRIPTION 🦋

here's the vibe, bestie:

usage: fastaq_expand_nucleotides <infile> <outfile>

Makes all combinations of sequences in input file by using all possibilities of redundant bases.</purl> fr fr. every redundant base gets expanded out into every base it could possibly be, and you get all the resulting sequences. it's like a glow-up for your ambiguous reads. ✨

for example: ART could be AAT or AGT. that's it, that's the whole idea. the R is out here being mysterious and this tool is like "girl, pick a lane" and then just... picks all of them. 🌈

⚠️ heads up bestie: Assumes input is nucleotides, not amino acids. so don't come at her with protein sequences, she is NOT set up for that, and it's giving 💀. she said nucleotides only, periodt.

🎀 positional arguments 🎀

• infile — name of input file. your raw, ambiguous little sequences go here. 🫶
• outfile — name of output file. this is where all the expanded combos land. the after-photo. 📸

💖 options 💖

• -h, --help — show this help message and exit. classic. iconic. when in doubt, ask for help. 🙈

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so yeah. give her an infile, give her an outfile, and she'll hand you back every possible nucleotide combo like the icon she is. the way that abbreviation ART becomes AAT and AGT... lowkey obsessed. 🍓

this page is from fastaq_expand_nucleotides 3.17.0, dated January 2026, and that's the whole manual. mwah. stay slaying, and remember: nucleotides, not amino acids. 💜🧚