expected_z_score: Compute vector of expected Z Scores
In simGWAS: Fast Simulation of Large Case-Control GWAS Summary Statistics

Description Usage Arguments Value Author(s) Examples

Compute vector of expected Z scores

1 2	expected_z_score(N0, N1, snps, W, gamma.W, freq, GenoProbList = make_GenoProbList(snps = snps, W = W, freq = freq))

`N0`	The number of Y=0
`N1`	The number of Y=1
`snps`	The snps at which we wish to compute the expected Z Score
`W`	The true causal SNPs (these need not be in "snps")
`gamma.W`	The log odds ratios of effect of the true causal SNPs (not including gamma0, the intercept term)
`freq`	Haplotype frequencies as a data.frame, with column Probability indicating relative frequency in controls.
`GenoProbList`	An list of objects giving the probability of seeing each X,W genotype vector. This can be calculated within the function if no value supplied, or you can pass a pre-calculated version

The expected Z Score for all snps in snps, assuming the causal SNPs are W

Mary Fortune and Chris Wallace

freq=fake_freq(nhaps=100,nsnps=5) # fake haplotype frequency data
EZ=expected_z_score(N0=1000,N1=2000,snps=paste0("s",1:5),
                    W="s1",gamma.W=log(1.5),freq=freq)
EZ # causal variant is SNP 1, with OR 1.5