This is the source-code repository for the Web-App on-line at www.TCellXTalk.org.

Table Of Contents:

Description

TCellXTalk is a comprehensive database of experimentally detected phosphorylation, ubiquitination and acetylation sites in human T cells.

The web-app at www.TCellXTalk.org makes TCellXTalk accessible from Internet, and enables the in silico prediction of potential co-modified peptides to facilitate their experimental detection, using targeted or directed mass spectrometry, for the study of protein post-translational modification cross-talk.

More detailed information on TCellXTalk and the people at the CSIC/UAB Proteomics Laboratory behind it can be obtained at the web-app About section.

Source Code Requirements

Main Third-party Dependencies:

• Python 2.7
• Django 1.7
• SQLAlchemy 1.0
• MySQLdb - MySQL for Python 1.2.5
• matplotlib 1.4.3
• numpy 1.9.2

(Third-party versions correspond to those used. Newer versions have not been tested, although they may also be fine).

To ensure all third-party dependencies are meet, have a look at the requirements.txt file, or just run pip install -r requirements.txt from your Python virtual environment's command line.
If you find some problem installing dependencies using Python pip command, maybe the contents of file README_VENV.md can be of some help.

Other LP-CSIC/UAB Dependencies:

• TCellXTalk proteomics package: contains the code for the proteomics models for SQLAlchemy, filters/importers for different proteomics datasets, and other useful proteomics functions.
• TCellXTalk general package: contains useful classes and functions for Python development.
• TCellXTalk math_extras package: contains extra mathematical functions not found in the math package from Python standard lib.

Contribute

These programs are made to be useful. If you use them and don't work entirely as you expect, let us know about features you think are needed, and we will try to include them in future releases.