DESCRIPTION

Package: StanProt
Title: Bayesian Modelling for Label Free MS Based Proteomics
Version: 0.0.1
Authors@R: 
    c(person(given = "Philippe",
             family = "Hauchamps",
             role = c("aut", "cre"),
             email = "philippe.hauchamps@student.uclouvain.be",
             comment = c(ORCID = "YOUR-ORCID-ID")),
      person(given = "Laurent", family = "Gatto",
             email = "laurent.gatto@uclouvain.be",
             role = "aut",
             comment = c(ORCID = "0000-0002-1520-2268")))
Description: StanProt is a R package that provides Bayesian models for
 missingness process simultaneously to the MS intensities.
 On the one hand, StanProt proposes some S4 classes to standardise the access,
 manipulation and interpretation of Bayesian models generated with Stan MCMC
 engine (exact inference).
 On the other hand, StanProt provides also support for approximate inference,
 i.e. MFVB approximation (using built-in code), and Laplace approximation
 (using also Stan as en engine).
Imports:
    SummarizedExperiment,
    BiocParallel,
    methods,
    dplyr,
    stringr,
    magrittr,
    reshape2,
    tibble,
    ggplot2,
    patchwork,
    KernSmooth,
    lme4,
    extraDistr,
    EnvStats,
    rstan (>= 2.21.2)
License: GPL-3
Encoding: UTF-8
LazyData: true
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
Collate: 
    'ProtModelSpecPars.R'
    'ProtModelFit.R'
    'ProtModel.R'
    'ProtModelFitMFVB.R'
    'ProtModelFitStan.R'
    'stanfitDiagnostics.R'
    'ProtModelFitStanDiagnostics.R'
    'ProtModelPlots.R'
    'makeModel.R'
    'nuDistribution.R'
    'optimizeProteinRun.R'
    'runModel.R'
    'runProtModelEngine.ProtModelFitMFVB.R'
    'runProtModelEngine.ProtModelFitStan.R'
Depends: 
    R (>= 2.10)
Suggests: 
    knitr,
    rmarkdown,
    QFeatures,
    preprocessCore,
    tools,
    tidyr
VignetteBuilder: knitr