DESCRIPTION

Package: CNPBayes
Type: Package
Title: Bayesian mixture models for copy number polymorphisms
Version: 1.99.1
Maintainer: Rob Scharpf <rscharpf@jhu.edu>
Description: Bayesian hierarchical mixture models for batch effects and copy number.
Date: Tue Jan 20 20:41:00 EST 2015
Author: Stephen Cristiano, David McKean, Jacob Carey, Alison Klein, and Rob Scharpf
Depends:
    R (>= 4.0.0),
    IRanges,
    GenomicRanges
Imports:
    Rcpp (>= 0.12.1),
    S4Vectors,
    matrixStats,
    RColorBrewer,
    gtools,
    combinat,
    GenomeInfoDb (>= 1.11.6),
    methods,
    BiocGenerics,
    graphics,
    stats,
    coda,
    SummarizedExperiment,
    ggplot2,
    magrittr,
    purrr,
    tidyr,
    dplyr,
    tibble,
    scales,
    stringr,
    grid
Suggests:
    testthat,
    knitr,
    BiocStyle,
    rmarkdown,
    BiocCheck,
    MASS,
    VanillaICE,
    tidyverse,
    gap,
    magick,
    ggmcmc,
    rjags,
    usethis
Collate: 
    'help.R'
    'AllGenerics.R'
    'AllClasses.R'
    'MultiBatch.R'
    'MultiBatchList.R'
    'MultiBatchP.R'
    'RcppExports.R'
    'augment.R'
    'coerce-methods.R'
    'data.R'
    'functions.R'
    'genotype_cnps.R'
    'marginal_likelihood.R'
    'methods-Hyperparameters.R'
    'methods-McmcChains.R'
    'methods-McmcParams.R'
    'methods-MixtureModel.R'
    'methods-MultiBatchModel.R'
    'methods-MultiBatchPooled.R'
    'methods-SingleBatchModel.R'
    'methods-SingleBatchPooled.R'
    'methods-SummarizedExperiment.R'
    'model_initialization.R'
    'plot-functions.R'
    'posteriorSimulation-methods.R'
    'simulate_data.R'
    'zzz.R'
VignetteBuilder: knitr
License: Artistic-2.0
LinkingTo: Rcpp
biocViews: CopyNumberVariation, Bayesian
Roxygen: 
LazyData: TRUE
URL: https://github.com/scristia/CNPBayes
BugReports: https://github.com/scristia/CNPBayes/issues
NeedsCompilation: yes
Encoding: UTF-8
RoxygenNote: 7.1.1