Difference between revisions of "Pyrad"

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==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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Latest revision as of 21:24, 6 December 2019

Description

pyrad website  

pyRAD - Assembly and analysis of RADseq data sets.

The benefit of pyRAD over most alternative methods for analyzing RADseq-like data comes in its use of an alignment-clustering method (vsearch) that allows for the inclusion of indel variation which improves identification of homology across highly divergent samples. For this reason pyRAD is commonly employed for RADseq studies at deeper phylogenetic scales, however, it works equally well at shallow scales.

Required Modules

Serial

  • pyrad

System Variables

  • HPC_PYRAD_DIR - installation directory