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 |
| 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 El Capitan binaries: | r-release: not available |
| OS X Mavericks binaries: | r-oldrel: not available |
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