tutorial arrow
×
Submit new tools
Share tools covering the current topic. Provide easy-to-follow guidelines to improve their usability.

Phylogenetic congruence assessment software tools | Phylogenomics

Congruence is a broadly applied notion in evolutionary biology used to justify multigene phylogeny or phylogenomics, as well as in studies of coevolution, lateral gene transfer, and as evidence for common descent. Existing methods for identifying…
Phylo-MCOA
Desktop

Phylo-MCOA

Explores the genomic tree space and detect outlier genes and species based on…

Explores the genomic tree space and detect outlier genes and species based on multiple co-inertia analysis (MCOA), which efficiently captures and compares the similarities in the phylogenetic…

Clusterflock
Desktop

Clusterflock

An open source tool that can be used to discover horizontally transferred…

An open source tool that can be used to discover horizontally transferred genes, recombining areas of chromosomes, and the phylogenetic 'core' of a genome. Though we use it in an…

Conclustador
Desktop

Conclustador

A congruence method that accommodates both very large numbers of genes and high…

A congruence method that accommodates both very large numbers of genes and high degrees of incongruence. Conclustador uses clustering algorithms to identify subsets of genes based on similarity of…

Concaterpillar
Desktop

Concaterpillar

A hierarchical clustering method based on likelihood-ratio testing that…

A hierarchical clustering method based on likelihood-ratio testing that identifies congruent loci for phylogenomic analysis. Concaterpillar also includes a test for shared relative evolutionary rates…

omicade4
Desktop

omicade4

Allows multiple co-inertia analysis of omics datasets. omicade4 contains a…

Allows multiple co-inertia analysis of omics datasets. omicade4 contains a function that provides a method selecting top weighted variables (genes) on an axis.

TreeTracker
Desktop

TreeTracker

Detects overrepresented clusters in a hierarchical tree. TreeTracker compares a…

Detects overrepresented clusters in a hierarchical tree. TreeTracker compares a hierarchical and a dichotomic non-hierarchical classification of elements, in order to find clusters in a hierarchical…

mILD
Desktop

mILD

Automates the process of making pairwise comparisons between large numbers of…

Automates the process of making pairwise comparisons between large numbers of phylogenetic datasets using the incongruence length difference (ILD) test. The application also implements strategies for…

Information

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.