ProteoCloud: a full-featured open source proteomics cloud computing pipeline
Related Experiment Video
Updated: May 15, 2026

Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools
Published on: August 19, 2025
Thilo Muth1, Julian Peters, Jonathan Blackburn
1Department of Medical Protein Research, VIB, Ghent, Belgium.
Abstract:
We here present the ProteoCloud pipeline, a freely available, full-featured cloud-based platform to perform computationally intensive, exhaustive searches in a cloud environment using five different peptide identification algorithms. ProteoCloud is entirely open source, and is built around an easy to use and cross-platform software client with a rich graphical user interface. This client allows full control of the number of cloud instances to initiate and of the spectra to assign for identification. It also enables the user to track progress, and to visualize and interpret the results in detail. Source code, binaries and documentation are all available at http://proteocloud.googlecode.com.
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