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A Galaxy Workflow for the Functional Annotation of Metagenomic Samples
Eleftherios Pilalis1, Eythymios Ladoukakis2, Fragiskos N. Kolisis1, 2, and Aristotelis Chatziioannou1
1Metabolic Engineering & Bioinformatics Group Institute of Biological Research and Biotechnology, National Hellenic Research Foundation, Athens, Greece
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2Laboratory of Biotechnology, School of Chemical Engineering, National Technical University of Athens, Athens, Greece
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Abstract. In this work, an annotation workflow was developed, which performs a series of annotation tasks to sequences originating from metagenomic samples, using standard bioinformatics tools and Perl scripts. The Perl scripts interact with a Mysql database in order to store all annotation results to the respective tables, thus rendering easy the quick access and querying to all data. The whole pipeline was integrated into a Galaxy server, which provides a simple and intuitive interface that allows the user to easily create, run and share workflows for large datasets.
Keywords: Galaxy, Metagenomics, Gene Ontology Terms, Protein Function Prediction
LNAI 7297, p. 247 ff.
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© Springer-Verlag Berlin Heidelberg 2012