PXREVCOMP(1)

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

💅 PXREVCOMP(1) — like, the manual page, bestie

okay so this is pxrevcomp, a User Commands situation, and it's about to become your new favorite thing fr fr 🧬✨

✨ NAME ✨

pxrevcomp — reverse complement sequences 🦋

🌸 SYNOPSIS 🌸

pxrevcomp [OPTIONS]... [FILE]...

💖 DESCRIPTION 💖

It reverse complements sequences. That's the whole vibe. 👑

It'll happily slurp up fasta, fastq, phylip, and nexus formats from a file or from STDIN, and then it writes the results out in fasta format. So yes, the input is giving versatility and the output is giving consistency. iconic behavior honestly 💅

🎀 OPTIONS 🎀

  • -s, --seqf=FILE — the input sequence file, bestie. If you don't hand one over it reads from STDIN instead 🫶
  • -i, --ids=IDS — a comma sep list of ids to flip. and like, NO SPACES! i'm so serious 😭
  • -g, --guess — EXPERIMENTAL: it guesses whether there are seqs that need to be rev comp. it uses the edlib library on the first seq 👀
  • -p, --pguess — EXPERIMENTAL: progressively guess 🌈
  • -m, --sguess — EXPERIMENTAL: sampled guess 🍓
  • -o, --outf=FILE — the output sequence file. otherwise it's STOUT (yes, exactly like that, that's what it says, no cap 💀)
  • -h, --help — display this help and exit 🫡
  • -V, --version — display version and exit ⭐
  • -C, --citation — display the phyx citation and exit 📚

📚 CITATION 📚

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 Stephen A. Smith (blackrim) 💜

🙈 REPORTING BUGS 🙈

Report bugs to: https://github.com/FePhyFoFum/phyx/issues

phyx home page: https://github.com/FePhyFoFum/phyx

Copyright © 2017-2024 FePhyFoFum License GPLv3

and that's the whole page, bestie 🫶 this was pxrevcomp 1.3.1, dropped June 2024, and it ate. periodt. 💅✨🎀

📦 where this page comes from