Package: DAPAR
Type: Package
Title: Tools for the Differential Analysis of Proteins Abundance with R
Description: The package DAPAR is a Bioconductor distributed R package which 
    provides all the necessary functions to analyze quantitative data from 
    label-free proteomics experiments. 
    Contrarily to most other similar R packages, it is endowed with rich and 
    user-friendly graphical interfaces, so that no programming skill is 
    required (see `Prostar` package).
Version: 1.28.5
Date: 2022-07-14
Authors@R: c(person(given = "Samuel", family = "Wieczorek",
            email = "samuel.wieczorek@cea.fr",
    role = c("aut","cre")),
            person(given = "Florence", family ="Combes",
            email = "florence.combes@cea.fr",
    role = "aut"),
            person(given = "Thomas", family ="Burger",
            email = "thomas.burger@cea.fr",
    role = "aut"),
            person(given = "Vasile-Cosmin", family ="Lazar",
            email = "vcosminlazar@gmail.com",
    role = "ctb"),
		person(given = "Enora", family ="Fremy",
            email = "enora.fremy@cea.fr",
    role = "ctb"),
    	person(given = "Helene", family ="Borges",
            email = "helene.borges@cea.fr",
    role = "ctb"))
License: Artistic-2.0
VignetteBuilder: knitr
Depends: R (>= 4.2.0)
Suggests: testthat, BiocStyle, AnnotationDbi, clusterProfiler, graph,
        diptest, cluster, vioplot, visNetwork, vsn, igraph, FactoMineR,
        factoextra, dendextend, parallel, doParallel, Mfuzz, apcluster,
        forcats, readxl, openxlsx, multcomp, purrr, tibble, knitr,
        norm, scales, tidyverse, cp4p, imp4p (>= 1.1),lme4, dplyr,
        limma, preprocessCore, stringr, tidyr, impute, gplots,
        grDevices, reshape2, graphics, stats, methods, ggplot2,
        RColorBrewer, Matrix, org.Sc.sgd.db
Imports: Biobase, MSnbase, DAPARdata (>= 1.26.3), utils, highcharter,
        foreach
biocViews: Proteomics, Normalization, Preprocessing, MassSpectrometry,
        QualityControl, GO, DataImport
NeedsCompilation: no
RoxygenNote: 7.2.0
Packaged: 2022-07-14 21:45:26 UTC; biocbuild
Encoding: UTF-8
URL: http://www.prostar-proteomics.org/
BugReports: https://github.com/prostarproteomics/DAPAR/issues
Collate: agregation.R anova_analysis.R bioAnalysis.R clustering.R
        compute.t.tests.R DiffAnalysis.R get_pep_prot_cc.R metacell.R
        inOutFiles.R limmaAnalysis.R logText.R missingValuesFilter.R
        missingValuesImputation_PeptideLevel.R
        missingValuesImputation_ProteinLevel.R normalize.R pepa.R
        plots_boxplot.R plots_compare_Norm.R plots_corr_matrix.R
        plots_density.R plots_density_CV.R plots_heatmaps.R plots_pca.R
        plots_violin.R utils.R volcanoPlot.R palette.R hypothesisTest.R
        metacell_Plots.R zzz.R
git_url: https://git.bioconductor.org/packages/DAPAR
git_branch: RELEASE_3_15
git_last_commit: d484403
git_last_commit_date: 2022-07-14
Date/Publication: 2022-07-14
Author: Samuel Wieczorek [aut, cre],
  Florence Combes [aut],
  Thomas Burger [aut],
  Vasile-Cosmin Lazar [ctb],
  Enora Fremy [ctb],
  Helene Borges [ctb]
Maintainer: Samuel Wieczorek <samuel.wieczorek@cea.fr>
Built: R 4.2.1; ; 2022-07-15 08:47:19 UTC; windows
