GLISTMAKER(1)

📦 version 4.0+git20221122.71e6625, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble, ubuntu resolute, ubuntu stonking

💖 GLISTMAKER — bestie edition 💖

okay so this is a page from the GenomeTester User Manuals, and today we're learning about glistmaker(1). it's giving "tiny tool, huge slay". let's go 🫶

✨ NAME ✨

glistmaker — generate a list of all unique k-mers in input file with their frequencies 🧬✨

no cap, that's the whole vibe: you feed it files, it hands you back every unique k-mer plus how often each one showed up. iconic behaviour, honestly.

🌸 SYNOPSIS 🌸

glistmaker <INPUTFILES> [OPTIONS]

you give it your <INPUTFILES> and then whatever [OPTIONS] your little heart desires. simple as. 💅

🎀 OPTIONS 🎀

  • -v, --version — print version information and exit. she tells you who she is and dips. 👑
  • -h, --help — print this usage screen and exit. your emergency "wait what do i type" button 🫶
  • -w, --wordlength NUMBER — specify index wordsize. must be between 1 and 32. default is 16. this is literally the k in k-mer, bestie, so choose wisely 🔥
  • -c, --cutoff NUMBER — specify frequency cut-off. default is 1 🌸
  • -o, --outputname STRING — specify output name. default is "out" ✨
  • --num_threads — number of threads the program is run on. default is MIN(8, num_input_files) — yes the default is literally that expression, keep it in your notes 💀
  • --max_tables — maximum number of temporary tables. default is MAX(num_threads, 2) 🎀
  • --table_size — maximum size of the temporary table. default is 500000000. that's a lot of zeroes and she means every single one 🍓
  • -D — increase debug level. stack it up if you're nosy (affectionate) 🧚
quick vibe check: options like -w, -c and -o want an argument after them (NUMBER, NUMBER, STRING). don't just send them into the void alone 🙈

🌈 EXAMPLES 🌈

you could find some usage examples in:

/usr/share/doc/genometester/README.GenomeTester4.md

like, literally go read that file, it's right there 🦋

💜 SEE ALSO 💜

the whole friend group fr fr 👑

sign-off time: this page came from GenomeTester, dated 31 May 2018. old but still serving looks, periodt 💅✨🌸

📦 where this page comes from