MSF Parser

A Thermo MSF file parser using ActiveRecord as ORM. MSF files are SQLite3-based. This library provides a simple API using ActiveRecord that is directly translatable to the database’s schema.

This gem takes heavily from Angel Pizzaro's thermo_msf gem.

https://github.com/itmat/thermo_msf

This gem has not been developed to completion. It has only been taken sufficiently far to serve my present needs.

It has not been tested on MSF files other than those generated by my instrument operating my version of Thermo's Proteome Discoverer (1.3).

gem install msf

msf = MSF.new({:path => msf_file})
Peptides.all do |peptide|
  <whatever>
end

ibspectra msf_file >> msf_file/msf_file.ibspectra.csv

See erd/erd.png for an Entity Relationship Diagram of the MSF schema.

• Checkout

git clone git@github.com:bioteam/msf.git; cd msf

• Fix bugs, add features

<make changes>

• Test

rspec

• Update version

rake version:bump:patch

• Commit changes

git commit

• Release

rake release

Copyright (c) 2012 William Van Etten. See LICENSE.txt for further details.