tree-mean-lengths(1)

📦
version 4.1 · 3 versions
, in debian trixie, ubuntu questing, ubuntu resolute, ubuntu stonking

💖 tree-mean-lengths 💖

okay bestie, welcome to tree-mean-lengths — section 1 of the manual, aka the part where we vibe with trees and math ✨

🌸 NAME 🌸

tree-mean-lengths — Compute the mean lengths for branches in the given topology. 🦋

🎀 SYNOPSIS 🎀

tree-mean-lengths [OPTIONS] tree file1 [file2 ...]

💅 DESCRIPTION 💅

Compute the mean lengths for branches in the given topology. that's it, that's the whole thing, and honestly? iconic. 🫶

✨ ALLOWED OPTIONS: ✨

  • -h, --help — produce help message 👑 (yes bestie, the classic)
  • -T arg, --tree arg — tree to re-root 🌳
  • --files arg — tree samples to examine 🔍
  • -s arg (=0), --skip arg (=0) — number of tree samples to skip 🙈 (default is 0)
  • -u arg, --until arg — Read until this number of trees. ⏳
  • --ignore arg — Comma-separated taxa to remove 🚫🌿
  • --simple — Ignore all branches not in the query tree 🌈
  • -x arg (=1), --subsample arg (=1) — factor by which to sub-sample 🍓 (default is 1)
  • --var — report standard deviation of branch lengths instead of mean 📊
  • --no-node-lengths — ignore branches not in the specified topology 💀
  • --safe — Don't die if no trees match the topology 🛟 (lowkey the nicest flag here)
  • --show-node-lengths — Output special format ⭐
  • -V, --verbose — Output more log messages on stderr. 📢

😭 REPORTING BUGS: 😭

BAli-Phy online help: http://www.bali-phy.org/docs.php. 🔗

Please send bug reports to bali-phy-users@googlegroups.com. 📧 (they want to hear from you fr fr, don't be shy)

👑 AUTHORS 👑

Benjamin Redelings. 💜

💌 little sign-off from me to you: this page is from Feb 2018, it's tree-mean-lengths(1), and that's the whole vibe. go compute those mean lengths, bestie. periodt. 🌈✨
📦 where this page comes from