CM_TO_WIGEON(1)

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💖 CM_TO_WIGEON 💖

okay so bestie, welcome to the cm_to_wigeon manual page — it lives in section 1 of the User Commands, and it's the little helper buddy that rolls up with wigeon (that's the Pintail 16S DNA anomaly detection situation 👑).

✨ NAME ✨

cm_to_wigeon — a helper for wigeon (Pintail 16S DNA anomaly detection) 🦋

🌸 DESCRIPTION 🌸

ngl, this is the awkward part. This tool that comes along with wigeon(1) is not documented 😭 like, at all. What we do know is that it's all about the options listed below.

If you, queen, actually know more about what its purpose is, please drop the maintainers a note using reportbug on your Debian system. Be the main character who fixes the docs 💅

🎀 OPTIONS 🎀

🌟 Required:

  • --query_NAST — multi-fasta file containing query sequences in alignment format. non-negotiable, it's giving essential 💖
  • --db_NAST — db in NAST format ✨
  • --db_FASTA — db in fasta format (megablast formatted) 🔥

💫 Common options

  • -n — number of top matching database sequences to compare to (default 15)
  • -R — min divergence ratio, default: 1.007
  • -P — min percent identity among matching sequences (default 90)

🧚 Parameters to tune ChimeraMaligner:

⭐ Scoring parameters:

  • -M — match score (default: +5) 🌈
  • -N — mismatch penalty (default: -4) 💀
  • -Q — min query coverage by matching database sequence (default 70)
  • -T — maximum traverses of the multiple alignment (default 1)

🎀 Flags:

  • --printAlignments — (default off) 🙈
  • -v — verbose 👀
  • --exec_dir — cd here before running 🚗

🔎 SEE ALSO 🔎

👑 AUTHOR 👑

This manual page was written by Andreas Tille <tille@debian.org> but can be freely used for any other distribution. slay, generous king 🫶

and that's the whole vibe, bestie — this was cm_to_wigeon, dated June 2013, section 1 of the manual, and you absolutely ate reading it 💅✨

📦 where this page comes from