Difference between revisions of "PATHd8"

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PATHd8 is implemented in the C-program PATHd8 and is freely available from this website. The program works instantaneously even for very large phylogenetic trees. (The time-complexity is O(n*t), where n is the number of nodes and t is the number of time contraints.)
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A program for phylogenetic dating of large trees without a molecular clock
  
 
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
 
Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
 
==System Variables==
 
==System Variables==
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
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* HPC_{{uc:{{#var:app}}}}_BIN - executable directory
 
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{{#if: {{#var: conf}}|==Configuration==
 
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Latest revision as of 21:22, 6 December 2019

Description

pathd8 website  

A program for phylogenetic dating of large trees without a molecular clock

Environment Modules

Run module spider pathd8 to find out what environment modules are available for this application.

System Variables

  • HPC_PATHD8_DIR - installation directory
  • HPC_PATHD8_BIN - executable directory




Citation

If you publish research that uses pathd8 you have to cite it as follows:

The program PATHd8 is based on the manuscript

  • Estimating divergence times in large phylogenetic trees by Tom Britton, Cajsa Lisa Anderson, David Jacquet, Samuel Lundqvist and Kåre Bremer, in Systematic Biology 56:5, pp 741 - 752 .
  • Britton, T., B. Oxelman, A. Vinnersten, and K. Bremer. 2002. Phylogenetic dating with confidence intervals using mean path lengths. Molecular Phylogenetics and Evolution 24:58-65.