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rje_mascot V1.2

Module for loading, manipulating and saving MASCOT data for BUDAPEST and PICSI

Module: rje_mascot
Description: Module for loading, manipulating and saving MASCOT data for BUDAPEST and PICSI
Version: 1.2
Last Edit: 27/02/13

Copyright © 2011 Richard J. Edwards - See source code for GNU License Notice


Imported modules: rje rje_db rje_obj rje_zen


See SLiMSuite Blog for further documentation. See rje for general commands.

Function

The main function of this module is to read in CSV-exported data from MASCOT and then save it in formats that can be more readily utilised and interrogated by other programs.

Commandline

INPUT OPTIONS

mascot=FILE : Name of MASCOT csv file [None]
itraq=T/F : Whether data is from an iTRAQ experiment [False]
empai=T/F : Whether emPAI data is present in MASCOT file [True]
samples=LIST : List of X:Y, where X is an iTRAQ isotag and Y is a sample []

See also rje.py generic commandline options.

History Module Version History

    # 0.0 - Initial Compilation based on BUDAPEST 1.9 for use with BUDAPEST 2.0.
    # 1.0 - Working version including reading in of iTRAQ data.
    # 1.1 - Fixed bugs for reading in data with unmatched peptides and iTRAQ data.
    # 1.2 - Added 

© 2015 RJ Edwards. Contact: richard.edwards@unsw.edu.au.