ModelOMatic specifications


Unique identifier OMICS_11548
Name ModelOMatic
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Programming languages C++
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes


No version available



  • person_outline Simon Whelan

Publication for ModelOMatic

ModelOMatic citation


Unifying the global phylogeny and environmental distribution of ammonia oxidising archaea based on amoA genes

Nat Commun
PMCID: 5904100
PMID: 29666365
DOI: 10.1038/s41467-018-03861-1

[…] and on G-INS-i, E-INS-i, MSAProbs and L-INS-I for subunit B. The final alignment of concatenated CuMMO subunits A and B comprised 125 sequences with 595 aligned protein/codon positions. Analysis with ModelOMatic indicated that codon models fit the data better than protein models and thus phylogenetic analyses were performed based on codon sequences. The best-fit model of codon evolution was select […]

ModelOMatic institution(s)
Evolutionary Biology, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden; Faculty of Life Sciences, University of Manchester, Manchester, UK
ModelOMatic funding source(s)
This work was supported by the UK Biotechnology and Biological Sciences Research Council on grant codes [BB/H000445/1 and BB/H006818/1] and the NERC CASE PhD studentship, in collaboration with EMBL-EBI, UK.

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