W-test: dataset adaptive association test for main and interaction effects in GWAS data

  JC School of Public Health and Primary Care (JC SPHPC)  |  Faculty of Medicine |  The Chinese University of Hong Kong (CUHK)  |  Hong Kong SAR

 

 

 

Method

 

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Guide
      - R

      - C++

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CCRB-Statgene

 

 

 Bootstrap times to reach h and f convergence 

 

Simulation study is used to show convergence condition for estimating h and f.  The data set is composed 50 SNPs and 1,000 subjects. For 50 SNPs, there are 1225 pairs, and PB = min (1000, P) = 1000. In each round, the coefficient of variation (Cv) can be calculated by dividing standard deviation of h by its mean, to measure the standardized dispersion of the estimates.

This quantity is plotted against the size of B, as follows:

From the plot, a convergence is reached after B= 200, when Cv is less than 1.5% and steadily decrease. 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

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