NAME

python3-pymzml - mzML mass spectrometric data parsing

DESCRIPTION

This manual page documents briefly the python3-pymzml 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 data format;

- a set of functions to compare or handle spectra.

pymzML requires Python3.5+. The module is freely available on pymzml.github.com or pypi, published under the MIT license.

The documentation of this Python extension is packaged in the python"-pymzml-doc package.

EXAMPLES

A number of useful examples are shipped within the python-pymzml-doc package and can be found at /usr/share/doc/python3-pymzml/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. doi:10.1093/bioinformatics/bts066.

SEE ALSO

python-pymzml-doc(7).

AUTHOR

This manual page was written by Filippo Rusconi <lopippo@debian.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'.