MOCAT2: a metagenomic assembly, annotation and profiling framework

Summary: MOCAT2 is a software pipeline for metagenomic sequence assembly and gene prediction with novel features for taxonomic and functional abundance profiling. The automated generation and efficient annotation of non-redundant reference catalogs by propagating pre-computed assignments from 18 dat...

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Detalles Bibliográficos
Autores principales: Kultima, Jens Roat, Coelho, Luis Pedro, Forslund, Kristoffer, Huerta-Cepas, Jaime, Li, Simone S., Driessen, Marja, Voigt, Anita Yvonne, Zeller, Georg, Sunagawa, Shinichi, Bork, Peer
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2016
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4978931/
https://www.ncbi.nlm.nih.gov/pubmed/27153620
http://dx.doi.org/10.1093/bioinformatics/btw183
Descripción
Sumario:Summary: MOCAT2 is a software pipeline for metagenomic sequence assembly and gene prediction with novel features for taxonomic and functional abundance profiling. The automated generation and efficient annotation of non-redundant reference catalogs by propagating pre-computed assignments from 18 databases covering various functional categories allows for fast and comprehensive functional characterization of metagenomes. Availability and Implementation: MOCAT2 is implemented in Perl 5 and Python 2.7, designed for 64-bit UNIX systems and offers support for high-performance computer usage via LSF, PBS or SGE queuing systems; source code is freely available under the GPL3 license at http://mocat.embl.de. Contact: bork@embl.de Supplementary information: Supplementary data are available at Bioinformatics online.

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