miaViz

DOI: 10.18129/B9.bioc.miaViz  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see miaViz.

Microbiome Analysis Plotting and Visualization

Bioconductor version: 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>

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

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

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