Introduction

cmuts is a software suite for processing MaP-seq datasets, as well as its cousins RING-MaP and MOHCA-seq, or more generally any experiment where the readouts are mutations to a known reference sequence.

Installing

Each release carries static cmuts binaries for Linux (x86_64, aarch64) and macOS (arm64). These are self-contained and have no dependencies. The bundled cmuts-align helper requires

brew install minimap2 samtools fastp

Install Homebrew first if you don’t have it.

apt install minimap2 samtools fastp

Or load the appropriate modules for your cluster (examples here).

Alternatively, you can build from source, which may provide marginal speedups.

Next Steps