OMGene specifications


Unique identifier OMICS_23426
Name OMGene
Alternative name Optimise My Gene
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data A set of gene models and a genome.
Input format GTF+FASTA
Output data Some gene model variants.
Operating system Unix/Linux
Programming languages Python
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Bedtools, Exonerate
Maintained Yes




No version available


  • person_outline Steven Kelly

Publication for Optimise My Gene

OMGene citation


OMGene: mutual improvement of gene models through optimisation of evolutionary conservation

BMC Genomics
PMCID: 5923031
PMID: 29703150
DOI: 10.1186/s12864-018-4704-z

[…] stringent filtering criteria before the finalised set of gene models are presented as sets of GTF coordinates, amino acid FASTA and coding sequence (CDS) FASTA sequences.To demonstrate the utility of OMGene, it was applied to orthogroups formed from three sets of test species: a set of five plant species, a set of five mammal species and a set of five fungal species (Table ). Prokaryotes were not […]

OMGene institution(s)
Department of Plant Sciences, University of Oxford, Oxford, UK
OMGene funding source(s)
Supported by a Royal Society University Research Fellow, by the European Union’s Horizon 2020 research and innovation programme under grant agreement number 637765 and by an EPSRC studentship through EP/G03706X/1.

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