VCFSTATS(1)

📦
version 1.0.12 · 3 versions
, in debian trixie, ubuntu questing, ubuntu resolute, ubuntu stonking

💅 VCFSTATS(1) — the vcfstats page, bestie edition

okay so this is vcfstats, from the vcflib girlies. it's a whole vibe. let's go 🫶

✨ NAME ✨

vcfstats — literally the name, that's it, that's the whole name 💖

🌸 SYNOPSIS 🌸

vcfstats options

🦋 DESCRIPTION 🦋

so basically? it prints statistics about the variants in the input VCF file. that's the gig. that's the whole entire gig. stats about your variants, printed. iconic behavior honestly 👑

🎀 OPTIONS 🎀

  • -r, --region — pick a region to target the stats at. ⚠️ heads up bestie: this requires a BGZF compressed file which has been indexed with tabix. and no, you're not limited to one — any number of regions may be specified. go off, queen 🌈
  • -a, --add-info — this one adds the statistics intermediate information straight into the VCF file, so it writes out VCF records instead of summary statistics. different energy entirely ✨
  • -t, --add-type — only adds the type= field to the info. this is faster than -a, so if you're in a rush, this is your girl 💅
  • -l, --no-length-frequency — don't print out the indel and mnp length-frequency spectra. skipping the spectra, no notes 🙈
  • -m, --match-score N — match score for the SW algorithm 🔥
  • -x, --mismatch-score N — mismatch score for the SW algorithm 😭
  • -o, --gap-open-penalty N — gap open penalty for the SW algorithm ✨
  • -e, --gap-extend-penalty N — gap extension penalty for the SW algorithm 💜
Type: statistics

💀 EXIT VALUES 💀

  • 0 — Success. we ate. 🎉
  • not 0 — Failure. not the vibe. 😭

🔥 SEE ALSO 🔥

🌈 OTHER 🌈

📜 LICENSE 📜

Copyright 2011-2024 (C) Erik Garrison and vcflib contributors. MIT licensed. Copyright 2020-2024 (C) Pjotr Prins.

👑 AUTHORS 👑

Erik Garrison and vcflib contributors.

and that's the whole page, bestie!! this was vcfstats from vcflib — go forth and get those variant stats, you absolute main character 🦋✨💖

📦 where this page comes from