theseus: Analysis and Visualization Tools for Microbial Community Data

An approach to the visualization, analysis, and interpretation of (microbial) community composition data, especially those originating from amplicon sequencing. Analysis techniques include constrained and unconstrained ordination and visualizing taxonomic abundances and spatial patterns, among others. Methods intended to assist bioinformaticians and ecologists in selecting read trimming by quality scores and preprocessing/denoising of datasets are also provided.

Version: 0.1.0
Depends: R (≥ 3.3.0)
Imports: dplyr, ggplot2 (≥ 2.2.1), gridExtra, magrittr (≥ 1.5), parallel (≥ 3.4.1), phyloseq (≥ 1.20.0), ShortRead (≥ 1.34.0), splancs, tidyverse (≥ 1.1.1), tidyr, vegan (≥ 2.3.5), viridis (≥ 0.4.0)
Suggests: covr, knitr, rmarkdown, testthat
Published: 2017-12-20
Author: Jacob Price [aut], Stephen Woloszynek [cre, aut]
Maintainer: Stephen Woloszynek <sw424 at drexel.edu>
BugReports: http://github.com/EESI/theseus/issues
License: MIT + file LICENSE
URL: http://github.com/EESI/theseus
NeedsCompilation: no
Citation: theseus citation info
Materials: README NEWS
CRAN checks: theseus results

Downloads:

Reference manual: theseus.pdf
Vignettes: Using the theseus R package
Package source: theseus_0.1.0.tar.gz
Windows binaries: r-devel: theseus_0.1.0.zip, r-release: theseus_0.1.0.zip, r-oldrel: not available
OS X binaries: r-release: theseus_0.1.0.tgz, r-oldrel: not available

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