CoreTracker

CoreTracker is an algorithm that infers sense-to-sense codon reassignments in a set of related genomes. It uses statistical evaluations, a random forest classifier, and a phylogeny-aware step to accurately predict and validate the reassignments. This process allows for tracing the evolution of each reassignment to gain insight into its mechanism.

Topic

Cell biology;Genomics;Gene expression

Detail

  • Operation: Codon usage analysis

  • Software interface: Command-line user interface

  • Language: Python

  • License: GNU General Public License v>=3

  • Cost: Free

  • Version name: 1.4.8

  • Credit: Fonds de recherche du Québec - Nature et technologies (FRQNT).

  • Input: -

  • Output: -

  • Contact: Nadia El-Mabrouk mabrouk@iro.umontreal.ca

  • Collection: -

  • Maturity: Stable

Publications

  • CoreTracker: accurate codon reassignment prediction, applied to mitochondrial genomes
  • Noutahi E, Calderon V, Blanchette M, Lang FB, El-Mabrouk N. CoreTracker: accurate codon reassignment prediction, applied to mitochondrial genomes. Bioinformatics. 2017 Nov 1;33(21):3331-3339. doi: 10.1093/bioinformatics/btx421. PMID: 28655158.
  • https://doi.org/10.1093/bioinformatics/btx421
  • PMID: 28655158
  • PMC: -

Download and documentation

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