Package: MiscMetabar
Type: Package
Title: Miscellaneous Functions for Metabarcoding Analysis
Version: 0.16.8
Authors@R: person("Adrien", "Taudière", email = "adrien.taudiere@zaclys.net",
  role = c("aut", "cre", "cph"), comment = c(ORCID = "0000-0003-1088-1182"))
Description: Facilitate the description, transformation, exploration,
        and reproducibility of metabarcoding analyses. 'MiscMetabar' is
        mainly built on top of the 'phyloseq', 'dada2' and 'targets'
        'R' packages. It helps to build reproducible and robust
        bioinformatics pipelines in 'R'. 'MiscMetabar' makes ecological
        analysis of alpha and beta-diversity easier, more reproducible
        and more powerful by integrating a large number of tools.
        Important features are described in Taudière A. (2023)
        <doi:10.21105/joss.06038>.
License: AGPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 4.1.0), phyloseq, ggplot2 (>= 3.5.0), dplyr
Suggests: adespatial, ALDEx2, ANCOMBC, BiocManager, circlize,
        ComplexUpset, DECIPHER, DESeq2, devtools, DT, edgeR,
        formattable, ggalluvial, ggfittext, ggh4x, ggnetwork,
        ggstatsplot, ggridges, ggVennDiagram, glmulti, gtsummary,
        grDevices, grid, gridExtra, here, httr, igraph, iNEXT,
        indicspecies, IRanges, jsonlite, knitr, lefser, magrittr,
        methods, mia, metagenomeSeq, mixtools, multcompView, networkD3,
        pak, patchwork, pbapply, permute, phangorn, phyloseqGraphTest,
        pkgnet, plotly, plyr, reshape2, rmarkdown, rotl, Rtsne, scales,
        seqinr, SRS, stringr, SummarizedExperiment, testthat (>=
        3.0.0), tibble, tidyr, treemapify, umap, uwot, vegan,
        venneuler, vctrs, viridis, withr, writexl, spelling
RoxygenNote: 8.0.0
URL: https://github.com/adrientaudiere/MiscMetabar,
        https://adrientaudiere.github.io/MiscMetabar/
biocViews: Sequencing, Microbiome, Metagenomics, Clustering,
        Classification, Visualization
BugReports: https://github.com/adrientaudiere/MiscMetabar/issues
Roxygen: list(markdown = TRUE)
Imports: ape, Biostrings, cli, dada2, divent, lifecycle, purrr, rlang,
        stats, XVector
Config/testthat/edition: 3
Config/testthat/parallel: true
VignetteBuilder: knitr
Language: en-US
Config/pak/sysreqs: libglpk-dev make libbz2-dev libicu-dev libjpeg-dev
        liblzma-dev libpng-dev libxml2-dev xz-utils zlib1g-dev
Repository: https://adrientaudiere.r-universe.dev
Date/Publication: 2026-06-22 15:08:03 UTC
RemoteUrl: https://github.com/adrientaudiere/miscmetabar
RemoteRef: HEAD
RemoteSha: ec512e5c32c22a83cba87876479d083d555da06b
NeedsCompilation: no
Packaged: 2026-06-22 15:37:27 UTC; root
Author: Adrien Taudière [aut, cre, cph] (ORCID:
    <https://orcid.org/0000-0003-1088-1182>)
Maintainer: Adrien Taudière <adrien.taudiere@zaclys.net>