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bioRxiv · 10.1101/2021.09.17.460755

ProteoDisco: A flexible R approach to generate customized protein databases for extended search space of novel and variant proteins in proteogenomic studies

van de Geer, W. S.·van Riet, J.·van de Werken, H. J.
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Abstract

SummaryWe present an R-based open-source software termed ProteoDisco that allows for flexible incorporation of genomic variants, fusion-genes and (aberrant) transcriptomic variants from standardized formats into protein variant sequences. ProteoDisco allows for a flexible step-by-step workflow allowing for in-depth customization to suit a myriad of research approaches in the field of proteogenomics, on all organisms for which a reference genome and transcript annotations are available. Availability and ImplementationProteoDisco (R package version [≥] 0.99) is available from https://github.com/ErasmusMC-CCBC/ProteoDisco/. Contacth.vandewerken@erasmusmc.nl Supplementary informationSupplementary table, figures and data files available.

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van de Geer, W. S., van Riet, J., van de Werken, H. J.. 2021-09-19. ProteoDisco: A flexible R approach to generate customized protein databases for extended search space of novel and variant proteins in proteogenomic studies. https://doi.org/10.1101/2021.09.17.460755

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