phyml 3.3.20220408

Programs for working on SAM/BAM files

PhyML is a software package that uses modern statistical approaches to analyse alignments of nucleotide or amino acid sequences in a phylogenetic framework. The main tool in this package builds phylogenies under the maximum likelihood criterion. It implements a large number of substitution models coupled with efficient options to search the space of phylogenetic tree topologies. codePhyREX fits the spatial-Lambda-Fleming-Viot model to geo-referenced genetic data. This model is similar to the structured coalescent but assumes that individuals are distributed along a spatial continuum rather than discrete demes. PhyREX can be used to estimate population densities and rates of dispersal. Its output can be processed by treeannotator (from the BEAST package) as well as SPREAD.

Outputs: out
Website: https://github.com/stephaneguindon/phyml
Licenses: GPL 3
Package source: gnu/packages/bioinformatics.scm
Builds: See build status
Issues: See known issues

Installation

Install phyml 3.3.20220408 as follows:

guix install phyml@3.3.20220408

Or install the latest version:

guix install phyml

You can also install packages in augmented, pure or containerized environments for development or simply to try them out without polluting your user profile. See the guix shell documentation for more information.