Colocalisation Tests of Two Genetic Traits

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Documentation for package ‘coloc’ version 5.1.0.1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

coloc-package	Colocalisation tests of two genetic traits
alpha_to_logbf	alpha_to_logbf
approx.bf.estimates	Internal function, approx.bf.estimates
approx.bf.p	Internal function, approx.bf.p
bin2lin	binomial to linear regression conversion
check.alignment	check alignment
check.dataset	check_dataset
check_alignment	check alignment
check_dataset	check_dataset
coloc.abf	Fully Bayesian colocalisation analysis using Bayes Factors
coloc.bf_bf	Coloc data through Bayes factors
coloc.detail	Bayesian colocalisation analysis with detailed output
coloc.process	Post process a coloc.details result using masking
coloc.signals	Coloc with multiple signals per trait
coloc.susie	run coloc using susie to detect separate signals
coloc.susie_bf	run coloc using susie to detect separate signals
coloc_test_data	Simulated data to use in testing and vignettes in the coloc package
combine.abf	combine.abf
estgeno.1.cse	estgeno1
estgeno.1.ctl	estgeno1
est_cond	generate conditional summary stats
find.best.signal	Pick out snp with most extreme Z score
finemap.abf	Bayesian finemapping analysis
finemap.signals	Finemap multiple signals in a single dataset
logbf_to_pp	logbf 2 pp
logdiff	logdiff
logsum	logsum
map_cond	find the next most significant SNP, conditioning on a list of sigsnps
map_mask	find the next most significant SNP, masking a list of sigsnps
plot.coloc_abf	plot a coloc_abf object
plot_dataset	plot a coloc dataset
print.coloc_abf	print.coloc_abf
process.dataset	process.dataset
runsusie	Run susie on a single coloc-structured dataset
sdY.est	Estimate trait variance, internal function
sensitivity	Prior sensitivity for coloc
Var.data	Var.data
Var.data.cc	Var.data