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course slides

Logging into TACC

Link to exercise materials:

The exercises are written with expectation that files can be copied from here:

/work/02260/grovesd/lonestar/intro_to_rad_2017/

Unfortunately the permissions have proved diffiult and many users cannot access them here.

As a work around, a copy of this directory can be downloaded from dropbox here:

https://www.dropbox.com/s/gplddxxd0bn7tqt/intro_to_rad_2017.zip?dl=0


Exercises:

Planning:

in silico digestion

Data Processing:

demultiplex ddRAD

demultiplex 2bRAD

mapping ddRAD reads

denovo locus generation 2bRAD

genotyping ddRAD mpileup

Analysis:

vcftools

PCA

DAPC

Admixture


Other key links:

Full 2bRAD denovo pipeline

Full 2bRAD Reference Genome pipeline


References:






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