python-mzml - mzML mass spectrometric data parsing
This manual page documents briefly the python-mzml package that
packages the pymzML Python extension.
pymzML is an extension to Python that offers:
- easy access to mass spectrometry (MS) data that allows the rapid
development of tools;
- a very fast parser for mzML data, the standard in mass spectrometry
- a set of functions to compare or handle spectra.
pymzML requires Python2.6.5+ and is fully compatible with Python3. The
module is freely available on pymzml.github.com or pypi, published
under LGPL and requires no additional modules to be installed.
The documentation of this Python extension is packaged in the
A number of useful examples are shipped within the python-mzml package
and can be found at /usr/share/doc/python-mzml/example_scripts. A
number of the examples make use of functions contained in
get_example_file.py via an import of that file's contents. It is
suggested to copy this directory to a temporary place and to run python
from inside that new directory so as to gain access to the features
contained in that get_example_file.py file through an import (which
would not work otherwise).
BIBLIOGRAPHICAL REFERENCE TO BE CITED
Bald, T., Barth, J., Niehues, A., Specht, M., Hippler, M., and Fufezan,
C. (2012) pymzML - Python module for high throughput bioinformatics on
mass spectrometry data. Bioinformatics, UK,28:1052-1053.
This manual page was written by Filippo Rusconi <firstname.lastname@example.org>.
Permission is granted to copy, distribute and/or modify this document
under the terms of the GNU General Public License, Version 3 (GPL-3+),
published by the Free Software Foundation.
On a Debian system the complete text of the GNU General Public License
version 3 can be found in the file `/usr/share/common-licenses/GPL-3'.
October 2012 PYTHON-MZML(7)