Replicability Analysis for Multiple Studies of High Dimension

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Documentation for package ‘repfdr’ version 1.2.3

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

Help Pages

binned_zmat	Three GWAS studies - input objects to main function
binned_zmat_sim	Simulated data set - input objects to main function
bz	Three GWAS studies - input objects to main function
bz_sim	Simulated data set - input objects to main function
em.control	Control Parameters for the EM algorithm
hconfigs	Enumeration of all possible vectors of association status.
hmat_sim	Simulated data set - indicators of association status matrix
ldr	Estimation of posterior probabilities for the vectors of association status
manhattan	Bayes and local Bayes false discovery rate estimation for replicability analysis
pbz	Three GWAS studies - input objects to main function
pbz_sim	Simulated data set - input objects to main function
Pi	Estimation of the prior probabilities for each association status vector.
piem	Estimation of the prior probabilities for each association status vector.
repfdr	Bayes and local Bayes false discovery rate estimation for replicability analysis
SNPlocations	Three GWAS studies SNPs locations and data
twosided.PValues.tobins	Binning of two sided P-Values and estimation of the probabilities in each bin for the null and non-null states.
zmat_sim	Simulated data set
ztobins	Binning of z-scores and estimation of the probabilities in each bin for the null and non-null states.