Difference between revisions of "Pyrad"
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| + | = 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: | The go-to tutorial for this is at: | ||
| − | * | + | * http://nbviewer.jupyter.org/gist/dereneaton/1f661bfb205b644086cc/tutorial_RAD_3.0.ipynb |
| + | |||
| + | == 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. | ||
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.
