FSM-LITE(1)

💖 FSM-LITE ✨

okay bestie, gather round, because we're about to talk about Frequency-based String Mining and honestly? it's giving main character energy 🧚

🌸 NAME 🌸

fsm-lite — Frequency-based String Mining 💅

🎀 SYNOPSIS 🎀

fsm-lite -l <file> -t <file> [options]

🦋 DESCRIPTION 🦋

So. This is a single-core implementation of frequency-based substring mining 🍓. In bioinformatics it's used to pull out substrings that discriminate two (or more!) datasets inside high-throughput sequencing data. like, it finds the little string-y bits that tell your datasets apart. no cap. 🔥

⭐ OPTIONS ⭐

👑 mandatory:

these ones are literally not optional, you need them, periodt 💀

• -l, --list <file> — a text file that lists all your input files as whitespace-separated pairs, like this:

<data-name> <data-filename>

where <data-name> is a unique identifier (without whitespace, bestie, keep it clean) and <data-filename> is the full path to each input file 📁. The default data file format is FASTA and it needs to be uncompressed. ok? ok 🫶

• -t, --tmp <file> — stores the temporary index data 💾 (your lil scratch space, iconic)

🌈 optional:

these are the vibe-enhancers, mix and match as you please ✨

• -m, --min <int> — minimum length to report (default 9) 📏
• -M, --max <int> — maximum length to report (default 100) 📐
• -f, --freq <int> — minimum frequency per input file to report (default 1) 🔁
• -s, --minsupp <int> — minimum number of input files with support to report (default 2) 🫂
• -S, --maxsupp <int> — maximum number of input files with support to report (default inf) ♾️
• -v, --verbose — verbose output, aka it will yap and tell you everything that's happening 🗣️

💜 AUTHOR 💜

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program 🙌 (we love a generous king, fr fr).

and that's the whole page bestie, tysm for reading 🥹 this was fsm-lite version 0.0+20151109, dated April 2016, and it ate, ngl 💅✨🎀