Colocalisation Tests of Two Genetic Traits


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Documentation for package ‘coloc’ version 3.1

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coloc-package Colocalisation tests of two genetic traits
abf.plot Plotting functions for the coloc package
approx.bf.estimates Internal function, approx.bf.estimates
approx.bf.p Internal function, approx.bf.p
bf Bayes factors to compare specific values of eta
bf-method Bayes factors to compare specific values of eta
ci Methods to extract information from a 'coloc' or 'colocBayes' object
ci-method Methods to extract information from a 'coloc' or 'colocBayes' object
coloc-class Classes '"coloc"' and '"colocBayes"'
coloc.abf Fully Bayesian colocalisation analysis using Bayes Factors
coloc.abf.datasets Bayesian colocalisation analysis using data.frames
coloc.abf.snpStats Bayesian colocalisation analysis using snpStats objects
coloc.bma Wrapper to use colocalization testing within a Bayesian model averaging structure.
coloc.test Function to do colocalisation tests of two traits
coloc.test.summary Colocalisation testing using regression coefficients
colocABF-class Class '"colocABF"' holds objects returned by the 'coloc.abf' function
colocBayes-class Classes '"coloc"' and '"colocBayes"'
colocBayesBMA Classes '"coloc"' and '"colocBayes"'
colocBMA Classes '"coloc"' and '"colocBayes"'
colocPCs-class Class '"colocPCs"'
combine.abf combine.abf
eta Methods to extract information from a 'coloc' or 'colocBayes' object
eta-method Methods to extract information from a 'coloc' or 'colocBayes' object
fillin Impute missing genotypes
finemap.abf Bayesian finemapping analysis
logdiff logdiff
logsum logsum
pcs.model pcs.model
pcs.prepare Functions to prepare principle component models for colocalisation testing
plot Plotting functions for the coloc package
plot-method Plotting functions for the coloc package
process.dataset process.dataset
sdY.est Estimate trait variance, internal function
summary Methods to extract information from a 'coloc' or 'colocBayes' object
summary-method Methods to extract information from a 'coloc' or 'colocBayes' object
theta Methods to extract information from a 'coloc' or 'colocBayes' object
theta-method Methods to extract information from a 'coloc' or 'colocBayes' object
Var.data Var.data
Var.data.cc Var.data