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A library (in Rust) and CLI (mm) for working with Mass Spectrometry data.

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MSn Kit

A library (in Rust) and CLI (mm) for working with Mass Spectrometry data.

Quick Start for CLI

After downloading the executable, use --help to see the commands and options.

$ mm --help
msn-kit 0.2.3
Trent Hauck <trent@trenthauck.com>
CLI for dealing with MGF files.

USAGE:
    mm [OPTIONS] <SUBCOMMAND>

FLAGS:
    -h, --help       Prints help information
    -V, --version    Prints version information

OPTIONS:
    -o <output-format>        The output file to write to [default: mgf]

SUBCOMMANDS:
    head               Similar to head(1) in that it can output the top n records from an MGF
                       file
    help               Prints this message or the help of the given subcommand(s)
    metadata-filter    Select spectra based on the key value pairs in the metadata
    stats              Compute stats for inputs

The above command assumes the directory to mm has been placed on your path.

Installation

Releases are made to GitHub's release page: https://github.com/tshauck/msn-kit/releases/latest.

From there, download the version you'd like to use for the appropriate platform.

Currently there are builds for:

  • x86 Darwin
  • x86 Linux
  • x86 Windows
  • ARM Linux

Usage

A few things to note about the CLI's organization.

  • The CLI is organized as a single entrypoint at mm, then subcommands under that, e.g. mm stats, mm head, mm metadata-filter, etc. They all take a -h flag for help.
  • Many commands can take a -o global parameter (i.e. passed directly to mm) to specify the output format. mgf is an option which outputs what's expected. json is also an option which will output json records, one per line.

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A library (in Rust) and CLI (mm) for working with Mass Spectrometry data.

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