Package: metacoder
Title: Tools for Parsing, Manipulating, and Graphing Taxonomic
        Abundance Data
Version: 0.3.9
Authors@R: 
    c(person(given = "Zachary", 
             family = "Foster",
             role = c("aut", "cre"),
             email = "zacharyfoster1989@gmail.com"),
      person(given = "Niklaus",
             family = "Grunwald", 
             role = c("ths"),
             email = "grunwaln@science.oregonstate.edu"),
      person(given = "Kamil",
             family = "Slowikowski",
             role = c("ctb")),
      person(given = "Scott",
             family = "Chamberlain",
             role = c("ctb")),
      person(given = "Rob",
             family = "Gilmore",
             role = "ctb"))
Maintainer: Zachary Foster <zacharyfoster1989@gmail.com>
Description: Reads, plots, and manipulates large
    taxonomic data sets, like those generated from modern high-throughput
    sequencing, such as metabarcoding (i.e. amplification metagenomics, 16S
    metagenomics, etc). It provides a tree-based visualization called "heat
    trees" used to depict statistics for every taxon in a taxonomy using
    color and size. It also provides various functions to do common tasks in
    microbiome bioinformatics on data in the 'taxmap' format defined by the
    'taxa' package. The 'metacoder' package is described in the publication
    by Foster et al. (2017) <doi:10.1371/journal.pcbi.1005404>.
Depends: R (>= 3.0.2)
License: GPL-2 | GPL-3
LazyData: true
URL: https://grunwaldlab.github.io/metacoder_documentation/
BugReports: https://github.com/grunwaldlab/metacoder/issues
Imports: stringr, ggplot2, igraph, grid, taxize, seqinr, RCurl, ape,
        stats, grDevices, utils, lazyeval, dplyr, magrittr, readr,
        rlang, ggfittext, vegan, cowplot, GA, Rcpp, crayon, tibble, R6
Suggests: knitr, rmarkdown, testthat, BiocManager, phyloseq, phylotate,
        traits, biomformat, DESeq2
VignetteBuilder: knitr
RoxygenNote: 7.3.3
Encoding: UTF-8
biocViews:
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2026-04-10 23:29:15 UTC; fosterz
Author: Zachary Foster [aut, cre],
  Niklaus Grunwald [ths],
  Kamil Slowikowski [ctb],
  Scott Chamberlain [ctb],
  Rob Gilmore [ctb]
Repository: CRAN
Date/Publication: 2026-04-11 06:30:02 UTC
Built: R 4.5.3; x86_64-w64-mingw32; 2026-08-24 05:08:04 UTC; windows
Archs: x64
