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pyteomics 2.2.0

A framework for proteomics data analysis.

Package Documentation

Latest Version: 2.4.0

What is Pyteomics?
------------------

Pyteomics is a collection of lightweight and handy tools for Python that help
to handle various sorts of proteomics data. Pyteomics provides a growing set of
modules to facilitate the most common tasks in proteomics data analysis, such as:

* calculation of basic physico-chemical properties of polypeptides:

  * mass and isotopic distribution
  * charge and pI
  * chromatographic retention time

* access to common proteomics data:

  * MS or LC-MS data
  * FASTA databases
  * search engines output

* easy manipulation of sequences of modified peptides and proteins

The goal of the Pyteomics project is to provide a versatile, reliable and
well-documented set of open tools for the wide proteomics community.
One of the project's key features is Python itself, an open source language
increasingly popular in scientific programming. The main
applications of the library are reproducible statistical data analysis and rapid
software prototyping.

Required Python versions
------------------------

Pyteomics supports Python 2.7 and Python 3. Python 2.6 and older are not supported.

Project dependencies
--------------------

Pyteomics uses the following python packages:

- `numpy <http://pypi.python.org/pypi/numpy>`_
- `matplotlib <http://sourceforge.net/projects/matplotlib/files/matplotlib/>`_ (used by pyteomics.pylab_aux)
- `lxml <http://pypi.python.org/pypi/lxml/2.3>`_ (used by pyteomics.mzml, pyteomics.pepxml, pyteomics.mzid)

GNU/Linux
---------

The preferred way to obtain Pyteomics is via pip Python
package manager. The shell code for a freshly installed Ubuntu system::

    sudo apt-get install python-setuptools python-dev build-essential
    sudo easy_install pip
    sudo pip install lxml numpy matplotlib pyteomics

Windows
-------

- Download pre-compiled binary packages for Pyteomics dependencies:

    - `numpy <http://pypi.python.org/pypi/numpy>`_
    - `matplotlib <http://sourceforge.net/projects/matplotlib/files/matplotlib/>`_
    - `lxml <http://pypi.python.org/pypi/lxml>`_

- Download a pre-compiled binary Pyteomics package from the `list <http://pypi.python.org/pypi/pyteomics#downloads>`_.

OR

- If you have Enthought Python Distribution / ActivePython,
  execute in the command line::

      easy_install pip
      pip install lxml numpy matplotlib pyteomics
 
File Type Py Version Uploaded on Size
pyteomics-2.2.0.tar.gz (md5) Source 2013-10-29 71KB
pyteomics-2.2.0.win-amd64_py2.7.exe (md5) MS Windows installer 2.7 2013-10-28 279KB
pyteomics-2.2.0.win-amd64_py3.2.exe (md5) MS Windows installer 3.2 2013-10-28 279KB
pyteomics-2.2.0.win-amd64_py3.3.exe (md5) MS Windows installer 3.3 2013-10-28 277KB
pyteomics-2.2.0.win32_py2.7.exe (md5) MS Windows installer 2.7 2013-10-28 252KB
pyteomics-2.2.0.win32_py3.2.exe (md5) MS Windows installer 3.2 2013-10-28 252KB
pyteomics-2.2.0.win32_py3.3.exe (md5) MS Windows installer 3.3 2013-10-28 247KB
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