Guenomu

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Description

Guenomu (ゲノム) means "genome" in Japanese, and is a software written in C that estimates the species tree for a given set of gene families. Theoretically it will work with aligned sequences, one alignment per gene family, but at the moment it is functional only if you provide the distribution of gene trees for each family. That is, you must provide it with the possible gene topologies for each gene family, and the program will sample species trees compatible with these gene trees assuming that the disagreement between them is a composition between duplication and losses, deep coalescences, or other stochastic processes.

Availability

Version 201308 is freely available to users.

Licence

GNU GPLv2

Use

Initialize environment with command:

module add guenomu-201308
guenomu

or for MPI version (mpi module is automatically added by guenomu module) eg.

mpirun -np 2 guenomu run_importance_sampling.ctrl

Documentation

https://bitbucket.org/leomrtns/guenomu/wiki/Home#!how-to-run

module add guenomu-201308
guenomu -h

Program manager

meta@cesnet.cz

Homepage

https://bitbucket.org/leomrtns/guenomu/wiki/Home