DESCRIPTION

Package: ashr
Encoding: UTF-8
Type: Package
Maintainer: Peter Carbonetto <pcarbo@uchicago.edu>
Authors@R: c(person("Matthew","Stephens",role="aut",
                    email="mstephens@uchicago.edu"),
             person("Peter","Carbonetto",role=c("aut","cre"),
	            email="pcarbo@uchicago.edu"),
             person("Chaoxing","Dai",role="ctb"),
             person("David","Gerard",role="aut"),
             person("Mengyin","Lu",role="aut"),
             person("Lei","Sun",role="aut"),
             person("Jason","Willwerscheid",role="aut"),
             person("Nan","Xiao",role="aut"),
             person("Mazon","Zeng",role="ctb"))
Version: 2.2-66
Date: 2024-05-14
Title: Methods for Adaptive Shrinkage, using Empirical Bayes
Description: The R package 'ashr' implements an Empirical Bayes
    approach for large-scale hypothesis testing and false discovery
    rate (FDR) estimation based on the methods proposed in
    M. Stephens, 2016, "False discovery rates: a new deal",
    <DOI:10.1093/biostatistics/kxw041>. These methods can be applied
    whenever two sets of summary statistics---estimated effects and
    standard errors---are available, just as 'qvalue' can be applied
    to previously computed p-values. Two main interfaces are
    provided: ash(), which is more user-friendly; and ash.workhorse(),
    which has more options and is geared toward advanced users. The
    ash() and ash.workhorse() also provides a flexible modeling
    interface that can accommodate a variety of likelihoods (e.g.,
    normal, Poisson) and mixture priors (e.g., uniform, normal).
Depends:
    R (>= 3.1.0)
Imports:
    Matrix,
    stats,
    graphics,
    Rcpp (>= 0.10.5),
    truncnorm,
    mixsqp,
    SQUAREM,
    etrunct,
    invgamma
Suggests:
    testthat,
    knitr,
    rmarkdown,
    ggplot2,
    REBayes
LinkingTo: Rcpp
License: GPL (>=3)
NeedsCompilation: yes
URL: https://github.com/stephens999/ashr
BugReports: https://github.com/stephens999/ashr/issues
VignetteBuilder: knitr
RoxygenNote: 7.3.1