RNR-PRUNE(1)

💖 RNR-PRUNE(1) 💖

okay bestie, so this is the manual page for rnr-prune — a lil user command that's about to become your new fave. it's giving tree-surgery energy. let's get into it 🧚

✨ NAME ✨

rnr-prune — prunes a list of taxa from a bootstrap tree or a single tree with branch lengths. yes, it literally just ✂️ yeets taxa out of your trees, no cap.

🌸 DESCRIPTION 🌸

So this is RnR-prune version 1.0, released by Andre J. Aberer in 2011-10-25. vintage but iconic, we stan a legacy release 💅

This program prunes a list of taxa from a bootstrap tree or a single tree with branch lengths — like, say, a best-known ML/MP-tree. basically it's the "uninvite these people from the group chat" of phylogenetics 🫶

🎀 SYNTAX 🎀

rnr-prune [-i <bootTrees> | -t <treeFile>] -x <excludeFile> -n <runId> [-w <workingDir>] [-h]

👑 OBLIGATORY 👑

These ones are not optional, bestie. the program literally needs them, fr fr.

• -x <excludeFile> — a list of taxa (one taxon per line) to prune from either the bootstrap trees or the single best-known tree. this is your hit list, make it count 💀
• -i <bootTrees> — a collection of bootstrap trees. a whole squad of them.
• -t <treeFile> — a single tree with branch lengths. use either this flag or the -i flag — pick a lane, not both ✋
• -n <runId> — an identifier for this run. name it something cute so you can find it later.

🌈 OPTIONAL 🌈

Nice-to-haves. the sprinkles on top, if you will 🍓

• -w <workDir> — a working directory where output files are created. keep your mess contained, queen.
• -h — this help file. the "help me I'm lost" button, and there's zero shame in it 🙈

💜 AUTHOR 💜

This manpage was written by Nilesh Patra for the Debian distribution, and can be used for any other usage of the program. king behavior, honestly 👑

and that's the whole vibe check! now go forth and prune responsibly 💖✨

signing off with the deets: this is rnr-prune version 1.0.1, dated October 2021. mwah, take care bestie 🎀🦋💅