WebAUGUSTUS--a web service for training AUGUSTUS and predicting genes in eukaryotes

The prediction of protein coding genes is an important step in the annotation of newly sequenced and assembled genomes. AUGUSTUS is one of the most accurate tools for eukaryotic gene prediction. Here, we present WebAUGUSTUS, a web interface for training AUGUSTUS and predicting genes with AUGUSTUS. D...

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Published inNucleic acids research Vol. 41; no. Web Server issue; pp. W123 - W128
Main Authors Hoff, Katharina J, Stanke, Mario
Format Journal Article
LanguageEnglish
Published England Oxford University Press 01.07.2013
Subjects
Animals
Eukaryota - genetics
Expressed Sequence Tags
Genes
Genomics
Internet
Proteins - genetics
Sequence Analysis, Protein
Software
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Summary:The prediction of protein coding genes is an important step in the annotation of newly sequenced and assembled genomes. AUGUSTUS is one of the most accurate tools for eukaryotic gene prediction. Here, we present WebAUGUSTUS, a web interface for training AUGUSTUS and predicting genes with AUGUSTUS. Depending on the needs of the user, WebAUGUSTUS generates training gene structures automatically. Besides a genome file, either a file with expressed sequence tags or a file with protein sequences is required for this step. Alternatively, it is possible to submit an externally generated training gene structure file and a genome file. The web service optimizes AUGUSTUS parameters and predicts genes with those parameters. WebAUGUSTUS is available at http://bioinf.uni-greifswald.de/webaugustus.
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ISSN:0305-1048
1362-4962
DOI:10.1093/nar/gkt418