I am doing a case control association study and I am testing two SNP, When calculating HWE for control population a SNP is not in HWE? the results for this SNP are:
Control: AA 30, Aa 60, aa 8
Cases: AA 20, Aa 40, aa 0
How to deal with this data?Can you help me please?
Thanks in advance
Malgorzata (Margaret) Maciukiewicz
Fatima,
In R language there is a package Hardy-Weinberg available in many functions implemented. I used it for my computations. Also in a PLINK programy by Purcell there is a command to test for HW: http://pngu.mgh.harvard.edu/~purcell/plink/summary.shtml#hardy
It depends on you what you chose, however if have SNPs count I believe R package would be better.
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