OMA standalone: orthology inference among public and custom genomes and transcriptomes.

ABSTRACT: Genomes and transcriptomes are now typically sequenced by individual laboratories but analyzing them often remains challenging. One essential step in many analyses lies in identifying orthologs-corresponding genes across multiple species-but this is far from trivial. The Orthologous MAtrix (OMA) database is a leading resource for identifying orthologs among publicly available, complete genomes. Here, we describe the OMA pipeline available as a standalone program for Linux and Mac. When run on a cluster, it has native support for the LSF, SGE, PBS Pro, and Slurm job schedulers and can scale up to thousands of parallel processes. Another key feature of OMA standalone is that users can combine their own data with existing public data by exporting genomes and precomputed alignments from the OM

SUBMITTER: Altenhoff AM 

PROVIDER: S-EPMC6633268 | biostudies-literature | 2019 Jul

REPOSITORIES: biostudies-literature