DESCRIPTION

Package: OMA
Title: Orchestrating Microbiome Analysis with Bioconductor
Version: 0.98.32
Date: 2024-11-26
Authors@R:
    c(
  person(given = "Tuomas", family = "Borman", role = c("aut", "cre"), email = "tuomas.v.borman@utu.fi", comment = c(ORCID = "0000-0002-8563-8884")),
  person("Leo", "Lahti", role = c("aut"), comment = c(ORCID = "0000-0001-5537-637X")),
  person("Felix GM", "Ernst", email = "felix.gm.ernst@outlook.com", role = c("aut"), comment = c(ORCID = "0000-0001-5064-0928")),
  person("and others", "(see the full list of contributors)", role = c("ctb"))
  )
Description:
    This is a reference cookbook for **Microbiome Data Science** with
    R and Bioconductor.
License: CC BY-NC-SA 4.0
Encoding: UTF-8
URL: https://github.com/microbiome/OMA
BugReports: https://github.com/microbiome/OMA/issues
LazyData: true
biocViews:
    Book
Depends:
    R (>= 4.0.0)
Imports:
Suggests:
    ALDEx2,
    ANCOMBC,
    ape,
    biclust,
    BiocBook,
    BiocManager,
    BiocParallel,
    Biostrings,
    bluster,
    caret,
    circlize,
    cluster,
    cobiclust,
    ComplexHeatmap,
    corpcor,
    cowplot,
    curatedMetagenomicData,
    dada2,
    dendextend,
    devtools,
    DirichletMultinomial,
    dplyr,
    DT,
    factoextra,
    fido,
    forcats,
    ggplot2,
    ggpubr,
    ggtree,
    glmnet,
    glue,
    grid,
    gsEasy,
    gtools,
    igraph,
    IntegratedLearner,
    knitr,
    Maaslin2,
    mia,
    miaTime,
    miaViz,
    microbiome,
    microbiomeDataSets,
    MicrobiomeStat,
    mikropml,
    MMUPHin,
    MOFA2,
    multiview,
    NbClust,
    NetCoMi,
    NMF,
    patchwork,
    phyloseq,
    plotly,
    plotROC,
    purrr,
    qgraph,
    RColorBrewer,
    rebook,
    reshape2,
    reticulate,
    rgl,
    scales,
    scater,
    scuttle,
    sechm,
    sessioninfo,
    shadowtext,
    SpiecEasi,
    SPRING,
    stats,
    stringr,
    SuperLearner,
    tidyverse,
    topGO,
    vegan,
    WGCNA,
    xgboost
Remotes:
    github::microbiome/mia,
    github::microbiome/miaViz,
    github::microbiome/miaTime,
    github::stefpeschel/NetCoMi,
    github::zdk123/SpiecEasi,
    github::GraceYoon/SPRING,
    github::himelmallick/IntegratedLearner
VignetteBuilder: knitr
RoxygenNote: 7.3.2
BiocType: Book
BiocBookTemplate: 1.0.5
SystemRequirements: quarto