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* We provide functions for performing single variant conditional meta-analysis. For variants within the sliding window, the conditional analysis is exact, in the sense that they are equal to conditional analysis results obtained using individual level data.
* We provide functions for performing single variant conditional meta-analysis. For variants within the sliding window, the conditional analysis is exact, in the sense that they are equal to conditional analysis results obtained using individual level data.
* The following function can be used:
* The following function can be used:
conditional.rareMETALS.single.basic(candidate.variant,score.stat.file,cov.file,known.variant.vec,maf.cutoff,no.boot=0,alternative=c('two.sided','greater','less'),alpha=0.05,ix.gold=1,out.digits=4,callrate.cutoff=0,hwe.cutoff=0,gene.file="refFlat_hg19.txt.gz",p.value.known.variant.vec="N/A",anno.known.variant.vec="N/A",anno.candidate.variant="N/A")
conditional.rareMETALS.single.basic(candidate.variant,score.stat.file,cov.file,known.variant.vec,maf.cutoff,no.boot=0,alternative=c('two.sided','greater','less'),
alpha=0.05,ix.gold=1,out.digits=4,callrate.cutoff=0,hwe.cutoff=0,gene.file="refFlat_hg19.txt.gz",p.value.known.variant.vec="N/A",
anno.known.variant.vec="N/A",anno.candidate.variant="N/A")
* Input parameters are described below:
* Input parameters are described below:
