SynChro specifications

Information


Unique identifier OMICS_11718
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data The minimum input information that must be provided to SynChro is a list of protein-coding genes, ordered along the chromosomes (or scaffolds) and their associated amino-acid sequences. Their coordinates along chromosomes, centromere positions, and other genomic features are useful information but not compulsory for synteny block reconstruction.
Operating system Unix/Linux, Mac OS
Programming languages Python
License BSD 3-clause “New” or “Revised” License
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Guénola Drillon <>

SynChro articles

SynChro citation

2014
PMCID: 4271529

[…] fig. s7, supplementary material online). we identified 885 syntenic homologs between the two species (supplementary material, supplementary material online) sharing more than 85% of similarity using synchro (drillon et al. 2014). homologous proteins were aligned with muscle (edgar 2004) and alignments were cleaned with gblocks (castresana 2000). cleaned concatenated alignments were then analyzed […]

SynChro institution(s)
Sorbonne Universités, UPMC Univ Paris 06, UMR 7238, Biologie Computationnelle et Quantitative, Paris, France; CNRS, UMR7238, Biologie Computationnelle et Quantitative, Paris, France; Institut Universitaire de France, Paris, France
SynChro funding source(s)
This work was supported by the Agence Nationale de la Recherche (‘GB-3G’, ANR-10-BLAN-1606-01) and by an ATIP grant from the CNRS.

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