Bayesian colocalisation analysis using snpStats objects
Bayesian colocalisation analysis using snpStats objects
coloc.abf.snpStats(X1, X2, Y1, Y2, snps = intersect(colnames(X1),
colnames(X2)), type1 = c("quant", "cc"), type2 = c("quant", "cc"),
s1 = NA, s2 = NA, ...)X1 |
genetic data for dataset 1 |
X2 |
genetic data for dataset 2 |
Y1 |
response for dataset 1 |
Y2 |
response for dataset 2 |
snps |
optional subset of snps to use |
type1 |
type of data in Y1, "quant" or "cc" |
type2 |
type of data in Y2, "quant" or "cc" |
s1 |
the proportion of samples in dataset 1 that are cases (only relevant for case control samples) |
s2 |
the proportion of samples in dataset 2 that are cases (only relevant for case control samples) |
... |
parameters passed to |
Generates p values via score tests, then runs coloc.abf
output of coloc.abf
Chris Wallace
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