MOCAT2: a metagenomic assembly, annotation and profiling framework.

ABSTRACT

UNLABELLED 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.