Difference between revisions of "IGTP"

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[[Category:Software]][[Category:Bioinformatics]][[Category:Phylogenetics]]
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[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]
 
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<!--Modules-->
==Required Modules==
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==Environment Modules==
 
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
===Serial===
 
* {{#var:app}}
 
<!--===Parallel (OpenMP)===
 
* intel
 
* {{#var:app}}
 
===Parallel (MPI)===
 
* intel
 
* openmpi
 
* {{#var:app}}
 
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==System Variables==
 
==System Variables==
* HPC_{{uc:{{#var:app}}}}_DIR
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
 
* HPC_{{uc:{{#var:app}}}}_BIN
 
* HPC_{{uc:{{#var:app}}}}_BIN
 
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=Validation=
 
* Validated 4/5/2018
 

Latest revision as of 19:06, 12 August 2022

Description

iGTP website  

iGTP is a program designed to help biologists infer species phylogenies from gene phylogenies, using the gene tree parsimony (GTP) approach. The program implements efficient heuristics which allows it to handle large-scale species tree inference under the duplication, duplication-loss, and deep coalescence reconciliation costs.


iGTP provides the following features:

* Allowing unrooted input gene trees
* Providing three-dimensional tree visualization
* Computing reconciliation costs

Environment Modules

Run module spider iGTP to find out what environment modules are available for this application.

System Variables

  • HPC_IGTP_DIR - installation directory
  • HPC_IGTP_BIN




Citation

If you publish research that uses iGTP you have to cite it as follows: Ruchi Chaudhary, Mukul S. Bansal, André Wehe, David Fernández-Baca, Oliver Eulenstein, "iGTP: A software package for large-scale gene tree parsimony analysis", BMC Bioinformatics 2010, 11:574.