Difference between revisions of "BPP"

From UFRC
Jump to navigation Jump to search
 
(2 intermediate revisions by 2 users not shown)
Line 1: Line 1:
[[Category:Software]][[Category:Bioinformatics]][[Category:Phylogenetics]]
+
[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]
 
{|<!--CONFIGURATION: REQUIRED-->
 
{|<!--CONFIGURATION: REQUIRED-->
 
|{{#vardefine:app|bpp}}
 
|{{#vardefine:app|bpp}}
Line 20: Line 20:
 
The program BP&P implements the Bayesian methods of Yang (2002), Rannala & Yang (2003), Burgess & Yang (2008), and Yang & Rannala (2010), for estimating population sizes (theta), species divergence times (tau), and for delimiting species using multi-locus sequence data from several closely related species.
 
The program BP&P implements the Bayesian methods of Yang (2002), Rannala & Yang (2003), Burgess & Yang (2008), and Yang & Rannala (2010), for estimating population sizes (theta), species divergence times (tau), and for delimiting species using multi-locus sequence data from several closely related species.
 
<!--Modules-->
 
<!--Modules-->
==Required Modules==
+
==Environment Modules==
===Serial===
+
Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
* {{#var:app}}
 
<!--
 
===Parallel (OpenMP)===
 
* intel
 
* {{#var:app}}
 
===Parallel (MPI)===
 
* intel
 
* openmpi
 
* {{#var:app}}
 
-->
 
 
==System Variables==
 
==System Variables==
* HPC_{{#uppercase:{{#var:app}}}}_DIR
+
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
 
<!--Configuration-->
 
<!--Configuration-->
 
{{#if: {{#var: conf}}|==Configuration==
 
{{#if: {{#var: conf}}|==Configuration==
Line 68: Line 58:
 
<!--Turn the Table of Contents and Edit paragraph links ON/OFF-->
 
<!--Turn the Table of Contents and Edit paragraph links ON/OFF-->
 
__NOTOC____NOEDITSECTION__
 
__NOTOC____NOEDITSECTION__
=Validation=
 
* Validated 4/5/2018
 

Latest revision as of 18:21, 12 August 2022

Description

bpp website  

The program BP&P implements the Bayesian methods of Yang (2002), Rannala & Yang (2003), Burgess & Yang (2008), and Yang & Rannala (2010), for estimating population sizes (theta), species divergence times (tau), and for delimiting species using multi-locus sequence data from several closely related species.

Environment Modules

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

System Variables

  • HPC_BPP_DIR - installation directory

Additional Information

Sample '.ctl' files are in the '$HPC_BPP_CTL' directory. You need to copy one of them to your current working directory and modify it before running bpp.