- Unique identifier:
- Command line interface
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- Unix/Linux, Mac OS
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No open topic.
(Vinuesa and Contreras-Moreira, 2015)
Robust identification of orthologues and paralogues for microbial pan-genomics using GET_HOMOLOGUES: a case study of pIncA/C plasmids.
Methods Mol Biol.
(Contreras-Moreira and Vinuesa, 2013)
GET_HOMOLOGUES, a versatile software package for scalable and robust microbial pangenome analysis.
Appl Environ Microbiol.
PMID: 24096415 DOI: 10.1128/AEM.02411-13
Estación Experimental de Aula Dei (EEAD-CSIC), Zaragoza, Spain; Centro de Ciencias Genómicas, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico
1 user review
1 user review
This suit allows users to calculate pan- and core-genome for prokaryote and eukaryote genomes. It is relatively easy to use and it comes with good tutorials. It allows you to to use different algorithm to calculate orthologues genes, which I like. Moreover is periodically patched and new features are added. Moreover, it is quite interesting the features of looking for syntenic genes only, or look for orthologues intergenic regions. I would only have like to see OrthonFinder implemented and some more visualization tools for syntenic orthologues genes and pan- core-genomes. Overall it is a relly good and flexible tool! Highly recommendable.