pyOpenMS: A Python-based interface to the OpenMS mass-spectrometry algorithm library

An Automated Pipeline for High-Throughput Label-Free Quantitative Proteomics

(2013) Hendrik Weisser et al.   JOURNAL OF PROTEOME RESEARCH

Pyteomics—a Python Framework for Exploratory Data Analysis and Rapid Software Prototyping in Proteomics

(2013) Anton A. Goloborodko et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

pymzML--Python module for high-throughput bioinformatics on mass spectrometry data

(2012) T. Bald et al.   BIOINFORMATICS

The mzIdentML Data Standard for Mass Spectrometry-Based Proteomics Results

(2012) Andrew R. Jones et al.   MOLECULAR & CELLULAR PROTEOMICS

TraML—A Standard Format for Exchange of Selected Reaction Monitoring Transition Lists

(2011) Eric W. Deutsch et al.   MOLECULAR & CELLULAR PROTEOMICS

PyRosetta: a script-based interface for implementing molecular modeling algorithms using Rosetta

(2010) S. Chaudhury et al.   BIOINFORMATICS

mzML—a Community Standard for Mass Spectrometry Data

(2010) Lennart Martens et al.   MOLECULAR & CELLULAR PROTEOMICS

Options and considerations when selecting a quantitative proteomics strategy

(2010) Bruno Domon et al.   NATURE BIOTECHNOLOGY

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS

OpenMS – An open-source software framework for mass spectrometry

(2008) Marc Sturm et al.   BMC BIOINFORMATICS