GT-COMPREADS-COMPR(1)

📦
version 1.6.6 · 5 versions
, in ubuntu resolute, ubuntu stonking

💖 GT-COMPREADS-COMPR — like, the manual page, but make it make sense 💖

okay bestie, so this is gt-compreads-compress from the GenomeTools Manual 🌸 — it's the little tool that takes your fastq reads and squishes them into a compact encoding. glow-up for your data, no cap ✨

🌈 NAME 🌈

gt-compreads-compress — generates compact encoding for fastq data 💅

🎀 SYNOPSIS 🎀

gt compreads compress [option ...] (-files file [...])

✨ DESCRIPTION ✨

she's got options, and we're going through every single one because we don't skip 💖

  • -descs [yes|no] — do you wanna encode the descriptions too? (default: no) 🙈
  • -files — the file(s) containing reads. yes, the actual reads. the whole point, bestie 🧚
  • -name [string] — sets the base name for the HCR that's gonna be generated. it's only mandatory if you handed over more than one file. (default: undefined) 👑
  • -smap [string] — a file containing the alphabet description. if -smap isn't set, the dna alphabet gets used instead. (default: undefined) 🦋
  • -qrange [start end] — sets the range of quality values. every value smaller than or equal to the lower bound gets converted to the lower bound, and every value equal to or larger than the upper bound gets converted to the upper bound. clamping behaviour, periodt. (default: undefined) 🔥
  • -srate [value] — the sampling rate. she'll pick a sensible default depending on which sampling method you're on. (default: undefined) ⭐
  • -stype [...] — the type of sampling, one of regular, page, or none. (default: page) 🌸
  • -help — display help and exit 🫶
  • -version — display version information and exit 💜

💀 REPORTING BUGS 💀

found a bug? don't suffer in silence, tell the devs:

https://github.com/genometools/genometools/issues

they wanna know, fr fr 😭

and that's the whole vibe check 🎀 this page was living its best life as part of GenomeTools 1.6.6, dated 11/09/2025 — iconic, ate, no crumbs 💅✨

📦 where this page comes from