Projects using cogent3#
If you want your projected added to this list, make a PR!
- Spectral cluster Supertree
Spectral Cluster Supertree is a state-of-the-art algorithm for constructing rooted supertrees from collections of rooted source trees.
- piqtree
piqtree is a library that allows you to use IQ-TREE2 directly from Python! The interface with Python is through cogent3 objects.
- diverse-seq
Diverse-seq is a Python package for selecting sequences that are representative of the diversity in a sequence collection.
- phylim
A library for checking the limits of phylogenetic tree estimation..
- cogent3-ete3
A bridge between cogent3 and ete3 tree objects.
- ensembl-tui
A terminal user interface 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.