miaViz

DOI: 10.18129/B9.bioc.miaViz  

Microbiome Analysis Plotting and Visualization

Bioconductor version: Release (3.17)

The miaViz package implements functions to visualize TreeSummarizedExperiment objects especially in the context of microbiome analysis. Part of the mia family of R/Bioconductor packages.

Author: Tuomas Borman [aut, cre] , Felix G.M. Ernst [aut] , Leo Lahti [aut]

Maintainer: Tuomas Borman <tuomas.v.borman at utu.fi>

Installation

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

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

BiocManager::install("miaViz")

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("miaViz")

 

HTML	R Script	miaViz
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	Microbiome, Software, Visualization
Version	1.8.0
In Bioconductor since	BioC 3.13 (R-4.1) (2.5 years)
License	Artistic-2.0 | file LICENSE
Depends	R (>= 4.0), SummarizedExperiment, TreeSummarizedExperiment, mia(>= 0.99), ggplot2, ggraph (>= 2.0)
Imports	methods, stats, S4Vectors, BiocGenerics, BiocParallel, DelayedArray, scater, ggtree, ggnewscale, viridis, tibble, tidytree, tidygraph, rlang, purrr, tidyr, dplyr, ape, DirichletMultinomial
LinkingTo
Suggests	knitr, rmarkdown, BiocStyle, testthat, patchwork, vegan, microbiomeDataSets
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me	miaSim
Links To Me
Build Report

Package Archives

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

Source Package	miaViz_1.8.0.tar.gz
Windows Binary	miaViz_1.8.0.zip
macOS Binary (x86_64)	miaViz_1.8.0.tgz
macOS Binary (arm64)	miaViz_1.8.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/miaViz
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/miaViz
Bioc Package Browser	https://code.bioconductor.org/browse/miaViz/
Package Short Url	https://bioconductor.org/packages/miaViz/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.17	Source Archive