This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

microbiomeDASim

Microbiome Differential Abundance Simulation

Bioconductor version: Release (3.17)

A toolkit for simulating differential microbiome data designed for longitudinal analyses. Several functional forms may be specified for the mean trend. Observations are drawn from a multivariate normal model. The objective of this package is to be able to simulate data in order to accurately compare different longitudinal methods for differential abundance.

Author: Justin Williams, Hector Corrada Bravo, Jennifer Tom, Joseph Nathaniel Paulson

Maintainer: Justin Williams <williazo at ucla.edu>

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

Installation

To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("microbiomeDASim")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("microbiomeDASim")
microbiomeDASim PDF R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews Microbiome, Software, Visualization
Version 1.14.0
In Bioconductor since BioC 3.10 (R-3.6) (4 years)
License MIT + file LICENSE
Depends R (>= 3.6.0)
Imports graphics, ggplot2, MASS, tmvtnorm, Matrix, mvtnorm, pbapply, stats, phyloseq, metagenomeSeq, Biobase
Linking To
Suggests testthat (>= 2.1.0), knitr, devtools
System Requirements
Enhances
URL https://github.com/williazo/microbiomeDASim
Bug Reports https://github.com/williazo/microbiomeDASim/issues
See More
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package microbiomeDASim_1.14.0.tar.gz
Windows Binary microbiomeDASim_1.14.0.zip
macOS Binary (x86_64) microbiomeDASim_1.14.0.tgz
macOS Binary (arm64) microbiomeDASim_1.14.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/microbiomeDASim
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/microbiomeDASim
Bioc Package Browser https://code.bioconductor.org/browse/microbiomeDASim/
Package Short Url https://bioconductor.org/packages/microbiomeDASim/
Package Downloads Report Download Stats