DOI: 10.18129/B9.bioc.RCM    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see RCM.

Fit row-column association models with the negative binomial distribution for the microbiome

Bioconductor version: 3.10

Combine ideas of log-linear analysis of contingency table, flexible response function estimation and empirical Bayes dispersion estimation for explorative visualization of microbiome datasets. The package includes unconstrained as well as constrained analysis.

Author: Stijn Hawinkel <stijn.hawinkel at ugent.be>

Maintainer: Joris Meys <joris.meys at ugent.be>

Citation (from within R, enter citation("RCM")):


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biocViews DimensionReduction, Metagenomics, Microbiome, Software, Visualization
Version 1.2.0
In Bioconductor since BioC 3.9 (R-3.6) (1 year)
License GPL-2
Imports RColorBrewer, alabama, edgeR, reshape2, tseries, vegan, VGAM, ggplot2 (>=, nleqslv, phyloseq, tensor, MASS, stats, grDevices, graphics, methods
Suggests knitr, rmarkdown, testthat
URL http://users.ugent.be/~shawinke/RCMmanual/
BugReports https://github.com/CenterForStatistics-UGent/RCM/issues
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Source Package RCM_1.2.0.tar.gz
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Mac OS X 10.11 (El Capitan) RCM_1.2.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/RCM
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Package Short Url https://bioconductor.org/packages/RCM/
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