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: 1.43.0
Date: 2024-01-17
Author: 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"))
Maintainer: Samuel Wieczorek <samuel.wieczorek@cea.fr>
License: Artistic-2.0
VignetteBuilder: knitr
Depends: R (>= 4.3.0)
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 (>= 1.30.0), utils, highcharter,
        foreach
biocViews: Proteomics, Normalization, Preprocessing, MassSpectrometry,
        QualityControl, GO, DataImport
NeedsCompilation: no
RoxygenNote: 7.3.1
Packaged: 2025-11-02 14:48:20 UTC; root
Encoding: UTF-8
URL: http://www.prostar-proteomics.org/
BugReports: https://github.com/edyp-lab/DAPAR/issues
Collate: agregation.R anova_analysis.R bioAnalysis.R clustering.R
        dataset_Validity.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
Config/pak/sysreqs: libglpk-dev make libicu-dev libxml2-dev
        libnetcdf-dev libssl-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2025-10-29 14:28:00 UTC
RemoteUrl: https://github.com/bioc/DAPAR
RemoteRef: HEAD
RemoteSha: 47a1b73507dfaf3f9cd8c1895f1bf6a083800d20
Built: R 4.6.0; ; 2025-11-02 14:53:29 UTC; windows
