RNR-TII(1)

💅 RNR-TII 💅

okay bestie, welcome to rnr-tii(1), the user-commands page for a lil program that computes the taxonomic instability index. yes it's a whole vibe. let's get into it ✨

✨ NAME ✨

rnr-tii — computes the taxonomic instability index 🦋

🌸 DESCRIPTION 🌸

hiii so this is RnR-tii version 1.0, released by Andre J. Aberer on 2011-10-25 🎀 and literally the whole personality of this program is that it computes the taxonomic instability index. that's it, that's the job. iconic honestly 💅

here's the syntax, no cap:

rnr-tii -i <bootTrees> -n <runId> [-w <workingDir>] [-h] [-x <excludeFile>]

👑 OBLIGATORY: -i <bootTrees>

• -i <bootTrees> — a whole collection of bootstrap trees. like, a group of them. bring the whole squad 🫶 this one is obligatory, so no skipping, fr fr.
• -n <runId> — an identifier for this run. your little name tag for the run, so you can tell it apart later 💖 (also obligatory, bestie, no shortcuts)

🎀 OPTIONAL

• -z <z> — the exponent used in the TII formula ✨. use small values to emphasize close relationships, and vice versa (big values for the far-apart ones, iykyk). DEFAULT: 2 🌈
• -w <workDir> — a working directory where output files are created 📁. the spot where your results get to live their best life.
• -x <excludeFile> — exclude the taxa in this file prior to computing the TII 🙈. one taxon per line, so keep it tidy — and heads up, this happens before the TII math, not after.
• -h — this help file 💜. your little emergency bestie when you forget a flag.

not me listing every single flag so you don't have to guess 💀 everything's here, bestie, you're safe.

🌟 AUTHOR 🌟

this manpage was written by Nilesh Patra for the Debian distribution 💖 and can be used for any other usage of the program. slay, honestly — universal accessibility, we love to see it 👑

and that's the whole page!! this is rnr-tii version 1.0.1, dated October 2021 — go compute some taxonomic instability, main character 🦋💅