PXTLATE(1)

📦
version 1.3.2 · 3 versions
, in debian trixie, ubuntu questing, ubuntu resolute, ubuntu stonking

💖 PXTLATE(1) 💖

okay so bestie, welcome to the pxtlate page — it's a User Commands situation and it's literally about translating your DNA alignments into amino acids. no cap. let's get into it 🧬✨

🌸 NAME 🌸

pxtlate — translate DNA alignment to amino acids 💅

🦋 SYNOPSIS 🦋

pxtlate [OPTIONS]...

✨ DESCRIPTION ✨

Translate DNA alignment to amino acids. that's the whole vibe, that's the assignment, and she ate. 🔥

she'll happily take fasta, fastq, phylip, and nexus formats — from a file or from STDIN, whichever you're feeling 🫶

⚠️ NOTE: assumes sequences are in frame. like, she is NOT checking that for you, bestie. if your sequences aren't in frame that's a you problem and the results are gonna be a mess 😭

🎀 OPTIONS 🎀

  • -s, --seqf=FILE — the input nucleotide sequence file, girlie. if you don't give her one she'll just read from STDIN instead 💜
  • -t, --table=STRING — which translation table we're using, periodt. currently available:
    • 'std' (standard, default) ⭐
    • 'vmt' (vertebrate mtDNA) 🐟
    • 'ivmt' (invertebrate mtDNA) 🦋
    • 'ymt' (yeast mtDNA) 🍞
  • -o, --outf=FILE — output aa sequence file. otherwise it's STOUT (yes, really, that's what it says, that's her little typo and we love her for it) 🙈
  • -h, --help — display this help and exit. main character move honestly 👑
  • -V, --version — display version and exit. vibe check, but make it semantic 🌈
  • -C, --citation — display phyx citation and exit. give credit where credit is due, iykyk 💖

🌟 CITATION 🌟

if you use this in your work, cite her fr fr:

Brown, Joseph W., Joseph F. Walker, and Stephen A. Smith. 2017. Phyx: phylogenetic tools for unix. Bioinformatics 33(12): 1886-1888. https://doi.org/10.1093/bioinformatics/btx063.

👑 AUTHOR 👑

Written by Joseph F. Walker, Joseph W. Brown, Stephen A. Smith (blackrim) — the icons, the legends, the blueprint 💅

😭 REPORTING BUGS 😭

found a bug? not me being dramatic but please tell them:

Copyright © 2015-2024 FePhyFoFum License GPLv3 🫶

and that's the page bestie!! pxtlate version 1.3.1, dated June 2024 — go translate something cute, stay in frame, and drink some water 🌸✨💖

📦 where this page comes from