Description Usage Arguments Details Value Author(s)
Colocalisation testing supplying only regression coefficients and their variancecovariants matrices
1 2 3 
b1 
regression coefficients for trait 1 
b2 
regression coefficients for trait 2 
V1 
variancecovariance matrix for trait 1 
V2 
variancecovariance matrix for trait 2 
k 
Theta has a Cauchy(0,k) prior. The default, k=1, is equivalent to a uniform (uninformative) prior. We have found varying k to have little effect on the results. 
plot.coeff 
DEPRECATED. Please 
plots.extra 
list with 2 named elements, x and y, equal length character vectors containing the names of the quantities to be plotted on the x and y axes.

bayes 
Logical, indicating whether to perform Bayesian
inference for the coefficient of proportionality, eta. If

level.ci, n.approx 

bayes.factor 
Calculate Bayes Factors to compare specific values of eta. 
bma 
parameter set to 
Typically this should be called from coloc.test()
or coloc.bma()
, but is left as a public function, to use at your own risk, if you have some other way to define the SNPs under test.
an object of class coloc, colocBayes or colocBMA
Chris Wallace
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