FASTAQ-TO_ORFS_GFF(1)

💖 fastaq_to_orfs_gff 💖

okay bestie, so fastaq_to_orfs_gff is a User Commands girlie and she has exactly one job: she Writes a GFF file of open reading frames. that's it. that's the whole personality. and honestly? iconic. ✨

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🌸 NAME 🌸

fastaq_to_orfs_gff — Writes a GFF file of open reading frames 🧬✨

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🦋 DESCRIPTION 🦋

here's the vibe, the whole usage line, no cap:

fastaq_to_orfs_gff [options] <infile> <outfile>

She Writes a GFF file of open reading frames from a sequence file. literally that. you hand her a sequence file, she hands you back a GFF full of ORFs. slay. 💅

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🎀 positional arguments 🎀

these are the two besties you MUST bring to the function, fr fr:

• infile — Name of input file 📥 (the sequence file she's gonna read, bestie)
• outfile — Name of output GFF file 📤 (where all the ORF goodness goes)

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⭐ options ⭐

the lil toggle girlypops. here's the full roster, and yes, all of them, periodt:

• -h, --help — show this help message and exit 🫶 (she's polite, she'll tell you how she works and then dip)
• --min_length INT — Minimum length of ORF, in nucleotides [300] 📏 (default is 300, so anything shorter does not make the cut, sorry not sorry)

🌈 lowkey important: if you don't pass --min_length, she's using 300 nucleotides. that's the default. that's the vibe check.

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💜 a lil recap, iykyk

• input file goes in, GFF comes out 🍓
• --min_length INT controls the shortest ORF allowed, default [300] nucleotides
• -h / --help bails out with the help text
• and that's the whole entire tool, no extra lore, no hidden flags, nothing to guess at 🙈

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so yeah — that's fastaq_to_orfs_gff, and this whole page was served to you by fastaq_to_orfs_gff 3.17.0 ✨ January 2026 💖 go forth and find those ORFs bestie, you got this 💅👑