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Bioinformatics. 2016 Sep 1;32(17):2577-81. doi: 10.1093/bioinformatics/btw231. Epub 2016 May 5.

DOGMA: domain-based transcriptome and proteome quality assessment.

Author information

1
Institute for Evolution and Biodiversity, University of Münster, Münster 48149, Germany Institute for Bioinformatics and Chemoinformatics, Westphalian University of Applied Sciences, Recklinghausen 45665, Germany.
2
Institute for Evolution and Biodiversity, University of Münster, Münster 48149, Germany.

Abstract

MOTIVATION:

Genome studies have become cheaper and easier than ever before, due to the decreased costs of high-throughput sequencing and the free availability of analysis software. However, the quality of genome or transcriptome assemblies can vary a lot. Therefore, quality assessment of assemblies and annotations are crucial aspects of genome analysis pipelines.

RESULTS:

We developed DOGMA, a program for fast and easy quality assessment of transcriptome and proteome data based on conserved protein domains. DOGMA measures the completeness of a given transcriptome or proteome and provides information about domain content for further analysis. DOGMA provides a very fast way to do quality assessment within seconds.

AVAILABILITY AND IMPLEMENTATION:

DOGMA is implemented in Python and published under GNU GPL v.3 license. The source code is available on https://ebbgit.uni-muenster.de/domainWorld/DOGMA/ CONTACTS: e.dohmen@wwu.de or c.kemena@wwu.de

SUPPLEMENTARY INFORMATION:

Supplementary data are available at Bioinformatics online.

PMID:
27153665
DOI:
10.1093/bioinformatics/btw231
[Indexed for MEDLINE]

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