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PEPTAGRAM

peptagram generates a single-page HTML5 web-app to visualize proteomics analyses for a graphical comparison between multiple proteomics experiment (example).

The resulting HTML5 web-app is:

  • instantly available: runs on any modern webbrowser
  • cross-platform: everyone has a webbrowser
  • self-contained: just zip directory and send by email
  • publishable: installable on any server, even on Dropbox

More information at http://boscoh.github.io/peptagram.

Installation

peptagram consists of a set of python scripts that converts proteomics data into an HTML5 visualisation.

peptagram requries python 2.7. If your system does not have it, you should download python and the python package installer pip.

Download and unzip the package from https://github.com/boscoh/peptagram/archive/master.zip.

For Developers. To use peptagram as a module, you should:

> pip install peptagram

Or download the package and run:

> python setup.py install

peptagram has two python dependencies:

  1. pymzml to read .mzML files
  2. tkform to generate the GUI

To install them:

> pip install pymzml tkform

Usage

  1. User guide to the HTML5 visualisation http://boscoh.github.io/peptagram/vizhelp.html.
  2. Examples for generating visualisations from standard formats http://boscoh.github.io/peptagram/vizgen.html.
  3. Programming API to use custom data http://boscoh.github.io/peptagram/api.html.
  4. Source code and open-source contributions http://github.com/boscoh/peptagram.

Credits

(c) 2013, 2015. Bosco K. Ho.
Developed by Bosco Ho at the Monash Proteomics Facility.
Original concept by Oded Kleifeld.
Contributions by Rob Goode.

Changelog

0.5 (June 2015)

  • built GUIs for all the scripts
  • more responsive webapps
  • can combine peptagrams
  • streamlined parsers and support for more MS search types

0.2.1 (2013)

  • separated the delete_empty_proteins out in the proteins module