RAPMAP(1)

💖 RAPMAP 💖

okay bestie, welcome to rapmap (that's section 1 of the manual, iykyk) — the rapid, sensitive and accurate DNA read mapper that does all its magic via quasi-mapping ✨

🌸 NAME 🌸

rapmap — rapid sensitive and accurate DNA read mapping via quasi-mapping 🧬💅

🦋 SYNOPSIS 🦋

rapmap [pseudoindex|pseudomap|quasiindex|quasimap] <options>

✨ DESCRIPTION ✨

So, real talk: RapMap is a testing ground for ideas in quasi-mapping / (lightweight / pseudo) transcriptome alignment. Which means — and I'm gonna be honest with you bestie — at this point it is somewhat experimental 🙈.

The develop branch has the latest improvements and additions, but it is not guaranteed to be stable between commits. Like, no cap, it's giving chaos sometimes 😭.

Breaking changes to the master branch will be accompanied by a tag to the version before the breaking change — so you can always find your way home 🏠💖.

Currently, RapMap is a stand-alone quasi-mapper that can be used with other tools. It's also being used as part of Sailfish and Salmon 🐟 (iconic company, honestly).

Eventually, the hope is to create and stabilize an API so that it can be used as a library from other tools 👑. Manifesting that fr fr ✨

🎀 OPTIONS 🎀

RapMap contains 4 subcommands 💅:

• pseudoindex — builds a k-mer-based index (see rapmap_pseudoindex(1))
• pseudomap — map reads using a k-mer-based index (see rapmap_pseudomap(1))
• quasiindex — builds a suffix array-based (SA) index (see rapmap_quasiindex(1))
• quasimap — map reads using the SA-based index (see rapmap_quasimap(1))

🌈 AUTHOR 🌈

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program 🫶

and that's the whole vibe, bestie — go map some reads, you're gonna slay 💜

rapmap 0.3.0 — September 2016 — from the RAPMAP(1) page, mwah 💋