fdrtool: Estimation of (Local) False Discovery Rates and Higher Criticism

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Estimates both tail area-based false discovery rates (Fdr) as well as local false discovery rates (fdr) for a variety of null models (p-values, z-scores, correlation coefficients, t-scores). The proportion of null values and the parameters of the null distribution are adaptively estimated from the data. In addition, the package contains functions for non-parametric density estimation (Grenander estimator), for monotone regression (isotonic regression and antitonic regression with weights), for computing the greatest convex minorant (GCM) and the least concave majorant (LCM), for the half-normal and correlation distributions, and for computing empirical higher criticism (HC) scores and the corresponding decision threshold.

Author
Bernd Klaus and Korbinian Strimmer.
Date of publication
2015-07-08 09:50:31
Maintainer
Korbinian Strimmer <strimmerlab@gmail.com>
License
GPL (>= 3)
Version
1.2.15
URLs

View on CRAN

Man pages

censored.fit
Fit Null Distribution To Censored Data by Maximum Likelihood
dcor0
Distribution of the Vanishing Correlation Coefficient (rho=0)...
fdrtool
Estimate (Local) False Discovery Rates For Diverse Test...
fdrtool-internal
Internal fdrtool Functions
gcmlcm
Greatest Convex Minorant and Least Concave Majorant
grenander
Grenander Estimator of a Decreasing or Increasing Density
halfnorm
The Half-Normal Distribution
hc.score
Compute Empirical Higher Criticism Scores and Corresponding...
monoreg
Monotone Regression: Isotonic Regression and Antitonic...
pval.estimate.eta0
Estimate the Proportion of Null p-Values
pvalues
Example p-Values

Files in this package

fdrtool
fdrtool/src
fdrtool/src/isomean.c
fdrtool/NAMESPACE
fdrtool/NEWS
fdrtool/data
fdrtool/data/pvalues.rda
fdrtool/R
fdrtool/R/grenander.R
fdrtool/R/dcor0.R
fdrtool/R/pval.estimate.eta0.R
fdrtool/R/censored.fit.R
fdrtool/R/ecdf.pval.R
fdrtool/R/nullmodel.R
fdrtool/R/gcmlcm.R
fdrtool/R/approximate.fit.R
fdrtool/R/fndr.cutoff.R
fdrtool/R/monoreg.R
fdrtool/R/hc.score.R
fdrtool/R/halfnorm.R
fdrtool/R/fdrtool.R
fdrtool/MD5
fdrtool/DESCRIPTION
fdrtool/man
fdrtool/man/grenander.Rd
fdrtool/man/halfnorm.Rd
fdrtool/man/pvalues.Rd
fdrtool/man/monoreg.Rd
fdrtool/man/fdrtool-internal.Rd
fdrtool/man/hc.score.Rd
fdrtool/man/gcmlcm.Rd
fdrtool/man/pval.estimate.eta0.Rd
fdrtool/man/censored.fit.Rd
fdrtool/man/dcor0.Rd
fdrtool/man/fdrtool.Rd