JCVI: PGP: Parallel Prokaryotic Proteogenomics Pipeline for MPI Clusters, High-throughput Batch Clusters and Multicore Workstations.
 
 
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Tovchigrechko A, Venepally P, Payne SH

PGP: Parallel Prokaryotic Proteogenomics Pipeline for MPI Clusters, High-throughput Batch Clusters and Multicore Workstations.

Bioinformatics (Oxford, England). 2014 May 15; 30: 1469-70.

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Abstract

We present the first public release of our proteogenomic annotation pipeline. We have previously used our original unreleased implementation to improve the annotation of 46 diverse prokaryotic genomes by discovering novel genes, post-translational modifications and correcting the erroneous annotations by analyzing proteomic mass-spectrometry data. This public version has been redesigned to run in a wide range of parallel Linux computing environments and provided with the automated configuration, build and testing facilities for easy deployment and portability.