MiscMetabar: Miscellaneous Functions for Metabarcoding Analysis

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>.

Version: 0.7.10
Depends: R (≥ 3.5.0), phyloseq, ggplot2 (≥ 3.5.0), dada2, dplyr
Imports: ape, lifecycle, rlang, stats
Suggests: adespatial, ANCOMBC, BiocManager, Biostrings, circlize, ComplexUpset, DECIPHER, DESeq2, devtools, DT, edgeR, gghalves, ggh4x, ggstatsplot, ggridges, ggVennDiagram, gtsummary, grDevices, grid, gridExtra, here, httr, iNEXT, indicspecies, jsonlite, knitr, magrittr, metacoder, methods, mia, mixtools, multcompView, networkD3, pak, patchwork, permute, phangorn, phyloseqGraphTest, pbapply, plotly, plyr, purrr, reshape2, rmarkdown, rotl, Rtsne, scales, seqinr, SRS, stringr, SummarizedExperiment, testthat (≥ 3.0.0), tibble, tidyr, treemapify, vegan, venneuler, vctrs, viridis, withr
Published: 2024-03-08
Author: Adrien Taudière ORCID iD [aut, cre, cph]
Maintainer: Adrien Taudière <adrien.taudiere at zaclys.net>
BugReports: https://github.com/adrientaudiere/MiscMetabar/issues
License: AGPL-3
URL: https://github.com/adrientaudiere/MiscMetabar, https://adrientaudiere.github.io/MiscMetabar/
NeedsCompilation: no
Language: en-US
Materials: README NEWS
CRAN checks: MiscMetabar results

Documentation:

Reference manual: MiscMetabar.pdf
Vignettes: Introduction

Downloads:

Package source: MiscMetabar_0.7.10.tar.gz
Windows binaries: r-devel: MiscMetabar_0.7.10.zip, r-release: MiscMetabar_0.7.10.zip, r-oldrel: MiscMetabar_0.7.10.zip
macOS binaries: r-release (arm64): not available, r-oldrel (arm64): not available, r-release (x86_64): not available
Old sources: MiscMetabar archive

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