[BioC] GWAS with family data

Naomi Altman naomi at stat.psu.edu
Tue Apr 15 19:09:04 CEST 2014

Is there software in R for doing GWAS analysis with family case-control 

I started with the data in GWASdata.  This is a set of 13 families of 2 
ethnicities.  So just treating the data as a bunch of 2x3 tables is 
clearly not correct.

I cannot seem to find any software that is extensible.  The workflow in 
GWAStools seems OK (I did not do all of it) but it is a pipeline - not 
really the same as controlling my own analysis.


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