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
Config/pak/sysreqs: libglpk-dev make libicu-dev libjpeg-dev libpng-dev
        libxml2-dev libssl-dev libx11-dev zlib1g-dev
Repository: https://grunwaldlab.r-universe.dev
Date/Publication: 2026-04-10 22:42:07 UTC
RemoteUrl: https://github.com/grunwaldlab/metacoder
RemoteRef: HEAD
RemoteSha: aadeb4860f88108450b88ab3c3c9cc665968d5d8
NeedsCompilation: yes
Packaged: 2026-06-24 09:41:02 UTC; root
Author: Zachary Foster [aut, cre],
  Niklaus Grunwald [ths],
  Kamil Slowikowski [ctb],
  Scott Chamberlain [ctb],
  Rob Gilmore [ctb]