FASTAQ-TO_FASTA(1)

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

💖 FASTAQ-TO_FASTA 💖

okay bestie, gather round, because we're talking about fastaq_to_fasta — a User Commands icon from the fastaq family. she takes a whole bunch of different file formats and turns them into FASTA that's actually... pretty? like, formatted nicely and everything. it's giving glow-up. ✨

🌸 NAME 🌸

fastaq_to_fasta — literally converts a variety of input formats into nicely formatted FASTA format. that's the whole job. she does it and she does it well. 💅

🦋 DESCRIPTION 🦋

the vibe check:

usage: fastaq_to_fasta [options] <infile> <outfile>

yep, that's it. she converts a variety of input formats to nicely formatted FASTA format. no cap, that's the entire personality and honestly? iconic. 👑

🎀 positional arguments 🎀

these are the two things you must hand her, no skipping:

  • infile — the name of the input file. and bestie, she's flexible: this can be any of FASTA, FASTQ, GFF3, EMBL, GBK, or Phylip. she doesn't judge, she just converts. 🫶
  • outfile — the name of the output file. where the pretty FASTA goes. that's it, that's the one. 💖

✨ options ✨

the lil switches, the little knobs, the garnish. here's every single one, no gatekeeping:

  • -h, --help — shows this help message and then dips out (exits). your bestie when you're lost. 🙈
  • -l, --line_length LINE_LENGTH — how many bases go on each sequence line of the output file. want no linebreaks in your sequences at all? set it to zero. the default is 60. casual. 🍓
  • -s, --strip_after_whitespace — removes everything after the first whitespace in every sequence name. so seq1 this is extra drama becomes just seq1. clean. ✂️
  • -u, --check_unique — dies if any of the output sequence names are not unique. yes, actually dies. duplicate names = game over, so make sure your names are one of a kind. 💀
🫶 reminder that infile really does accept FASTA, FASTQ, GFF3, EMBL, GBK and Phylip — so if you've got any of those sitting around being ugly, she can fix that.

and that's the whole page, periodt. this was fastaq_to_fasta 3.17.0, dated January 2026. go convert something and slay, bestie 💅💖✨

📦 where this page comes from