Genome Majority Vote (GMV), Version 0.x

The pipeline runs PRODIGAL gene predictions on all genomes, runs pan-reciprocal BLAST, and identifies ortholog sets.
September 24, 2013
software

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Genome Majority Vote (GMV), Version 0.x

The GMV pipeline works as follows. Input is a set of genomes. The pipeline runs PRODIGAL gene predictions on all genomes, runs pan-reciprocal BLAST, and identifies ortholog sets. For a given set of orthologous genes, if the positions of the PRODIGAL selected starts coincide in a multiple sequence alignment, they are accepted. If they do not coincide, a consistent start position is sought where a majority of the highest-scoring PRODIGAL selected sites coincide. If such a position is found, it is accepted, and the predictions are changed for the outlying genes. Otherwise, no start site prediction is made for the ortholog set.

Licensing Status:

Available for Express Licensing(?). This software is open source.

To download, please visit GMV website. For more information, contact Software@lanl.gov.

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