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>.
Version: 0.3.8 Depends: R (≥ 3.0.2) 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 LinkingTo: Rcpp Suggests: knitr, rmarkdown, testthat, zlibbioc, BiocManager, phyloseq, phylotate, traits, biomformat, DESeq2 Published: 2025-02-11 DOI: 10.32614/CRAN.package.metacoder Author: Zachary Foster [aut, cre], Niklaus Grunwald [ths], Kamil Slowikowski [ctb], Scott Chamberlain [ctb], Rob Gilmore [ctb] Maintainer: Zachary Foster <zacharyfoster1989 at gmail.com> BugReports: https://github.com/grunwaldlab/metacoder/issues License: GPL-2 | GPL-3 URL: https://grunwaldlab.github.io/metacoder_documentation/ NeedsCompilation: yes Citation: metacoder citation info Materials: README NEWS In views: Phylogenetics CRAN checks: metacoder results Documentation: Downloads: Reverse dependencies: Linking:Please use the canonical form https://CRAN.R-project.org/package=metacoder to link to this page.
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