Projects using cogent3

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EnsemblLite

Command line tool for localising subsets of Ensembl data. It provides a command line interface for sampling related genes and whole genome alignments.

c3dev

Tools for development of cogent3 and replated projects.

MutationMotif

Command line tool for analysis of mutation spectra including measuring neighbouring base effects.

MutationOrigin

Command line tool for development and application of machine learning classifiers for predicting mutation origins.

geneticdistance

Compute genetic distanxce using a non-stationary Markov model of nucleotide substitutions for molecular evolutionary analyses of DNA sequences.

gnc

Model the effect of Darwinian natural selection using a non-stationary Markov model of codon substitutions for molecular evolutionary analyses of DNA sequences.