PARSE-EXAML(1)

💖 NAME 💖

parse-examl — okay so bestie, this one takes your alignment file in relaxed phylip format and transforms it into a binary file format that ExaML can actually read. glow-up for your data, fr fr ✨

🌸 SYNOPSIS 🌸

parse-examl -s sequenceFileName -n outputFileName -m substitutionModel
[-c] [-q] [-h]

🦋 DESCRIPTION 🦋

Not me giving you the whole rundown 💅 — this is the tool that does the glow-up: relaxed phylip alignment goes in, binary file that ExaML reads comes out. That's the whole vibe. 🎀

✨ OPTIONS ✨

• -m — the Model of Nucleotide or Amino Acid Substitution, i.e. you gotta tell it what kind of data it's looking at 👑:
  • For Binary data use: BIN
  • For DNA data use: DNA
  • For AA data use: PROT
• -c — disable site pattern compression. no cap, it just turns that off 🙈
• -q — specify the file name which contains the assignment of models to alignment partitions, for when you're running multiple models of substitution. For the syntax of this file, please consult the manual 📖 (iykyk, it's a whole thing)
• -h — display this help message. classic. iconic. 🫶

Heads up bestie: the synopsis also has -s sequenceFileName and -n outputFileName, but the OPTIONS list up there only spells out -m, -c, -q and -h, so that's all I'm giving you. 💀

💜 AUTHOR 💜

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

and that's the whole page, babe 🌈 — brought to you by parse-examl 3.0.18, dated February 2017. mwah, go parse something 💅💖