Difference between revisions of "Pyrad"

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(Created page with " The go-to tutorial for this is at: *")
 
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= Introduction =
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Software for RADseq
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module load pyrad
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will load the necessary software, mainly muscle and vsearch.
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= Guides =
  
 
The go-to tutorial for this is at:
 
The go-to tutorial for this is at:
*
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* http://nbviewer.jupyter.org/gist/dereneaton/1f661bfb205b644086cc/tutorial_RAD_3.0.ipynb
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== highlights ==
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* with the pyrad module loaded, the "pyrad "executable is immediately available on the command line
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* one of "-p", "-d", "-D" and "-n" options are essential.
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* "pyrad -n" generates a "params.txt" file which contains settings for the run. A large part of the analysis can be configured by editing this file.

Revision as of 16:58, 20 April 2016

Introduction

Software for RADseq

module load pyrad

will load the necessary software, mainly muscle and vsearch.

Guides

The go-to tutorial for this is at:

highlights

  • with the pyrad module loaded, the "pyrad "executable is immediately available on the command line
  • one of "-p", "-d", "-D" and "-n" options are essential.
  • "pyrad -n" generates a "params.txt" file which contains settings for the run. A large part of the analysis can be configured by editing this file.