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Jump to navigationJump to search→A Simple Tutorial for Using the conditional.rareMETALS.single
example:
example:
res<-conditional.rareMETALS.single(candidate.variant.vec=c("1:123","1:1234"), score.stat.file, cov.file,
res<-conditional.rareMETALS.single(candidate.variant.vec=c("19:11200282","19:11200309"), score.stat.file, cov.file,
known.variant.vec=c("1:123","1:1234"), maf.cutoff=0.05, no.boot = 10000,
known.variant.vec=c("19:11200754","19:11200806","19:11200839"), maf.cutoff=0.05, no.boot =1000,
alternative = c("two.sided", "greater", "less"), ix.gold = 1,
alternative = c("two.sided", "greater", "less"), ix.gold = 1,
out.digits = 4, callrate.cutoff = 0, hwe.cutoff = 0,
out.digits = 4, callrate.cutoff = 0, hwe.cutoff = 0,
p.value.known.variant.vec = NA, anno.known.variant.vec = NA,
p.value.known.variant.vec = NA, anno.known.variant.vec = NA,
anno.candidate.variant.vec = NA)
anno.candidate.variant.vec = NA)
print(res$res.out)
POS REF ALT PVALUE AF BETA_EST BETA_SD DIRECTION_BY_STUDY ANNO POS_REF_ALT_ANNO_KNOWN
[1,] "19:11200282" "G" "A" "0.5825" "0.000599" "0.5616" "1.044" "-=" "N/A" "19:11200754/G/A/NA,19:11200806/C/T/NA,19:11200839/T/A/NA"
[2,] "19:11200309" "C" "A" "0.01484" "0.01538" "-0.3615" "0.02201" "+=" "N/A" "19:11200754/G/A/NA,19:11200806/C/T/NA,19:11200839/T/A/NA"
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