Phyparts

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Description

This module allows executing PhyParts and PhyParts PieCharts.

PhyParts is meant to examine clades from a set of trees that may include duplications and incomplete taxon sampling. This is often the case with transcriptomes and genomes. These are relatively simple mapping analyses, intended to allow for exploration of large datasets.

PhyParts PieCharts is a script for generating piecharts on a phylogeny that has run through PhyParts.

Availability

version 0.0.1

Use

module add phyparts-0.0.1
phyparts # runs the phyparts analysis
phypartspiecharts # runs the phypartspiecharts.py script to plot pie charts on the species phylogeny showing the percentage of concordant gene trees, percentage in the top alternative bipartition, other conflicting topologies, and uninformative genes.

Documentation

https://bitbucket.org/blackrim/phyparts/src/master/README.md

https://github.com/mossmatters/phyloscripts/tree/master/phypartspiecharts

Licence

Public

Program manager

meta@cesnet.cz

Homepage

https://bitbucket.org/blackrim/phyparts/src/master/README.md

https://github.com/mossmatters/phyloscripts/tree/master/phypartspiecharts