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coloc (version 2.3-1)

Colocalisation tests of two genetic traits

Description

Performs the colocalisation tests described in Plagnol et al (2009), Wallace et al (2013) and Giambartolomei et al (2013).

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Install

install.packages('coloc')

Monthly Downloads

1,368

Version

2.3-1

License

GPL

Issues

51

Pull Requests

2

Stars

150

Forks

43

Maintainer

Chris Wallace

Last Published

September 29th, 2013

Functions in coloc (2.3-1)

logdiff

logdiff
coloc.abf.snpStats

Bayesian colocalisation analysis using snpStats objects
Var.data

Var.data
coloc.abf.datasets

Bayesian colocalisation analysis using data.frames
eta

Methods to extract information from a coloc or colocBayes object
colocPCs-class

Class "colocPCs"
coloc.bma

Wrapper to use colocalization testing within a Bayesian model averaging structure.
coloc-class

Classes "coloc" and "colocBayes"
coloc.abf

Fully Bayesian colocalisation analysis using Bayes Factors
process.dataset

process.dataset
Var.data.cc

Var.data
approx.bf.p

Internal function, approx.bf.p
coloc-package

Colocalisation tests of two genetic traits
bf

Bayes factors to compare specific values of eta
fillin

Impute missing genotypes
combine.abf

combine.abf
pcs.prepare

Functions to prepare principle component models for colocalisation testing
sdY.est

Estimate trait variance, internal function
coloc.test

Function to do colocalisation tests of two traits
pcs.model

pcs.model
approx.bf.estimates

Internal function, approx.bf.estimates
coloc.test.summary

Colocalisation testing using regression coefficients
logsum

logsum