miaViz
This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see miaViz.
Microbiome Analysis Plotting and Visualization
Bioconductor version: 3.16
The miaViz package implements plotting function to work with TreeSummarizedExperiment and related objects in a context of microbiome analysis. Among others this includes plotting tree, graph and microbiome series data. The package is part of the broader miaverse framework.
Author: Felix G.M. Ernst [aut] 
, Tuomas Borman [aut, cre] , Leo Lahti [aut]
Maintainer: Tuomas Borman <tuomas.v.borman at utu.fi>
citation("miaViz")):
Installation
To install this package, start R (version "4.2") 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")| miaViz | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Microbiome, Software, Visualization |
| Version | 1.6.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (3 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 |
| System Requirements | |
| URL |
See More
| Suggests | knitr, rmarkdown, BiocStyle, testthat, patchwork, microbiomeDataSets |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | miaViz_1.6.0.tar.gz |
| Windows Binary | miaViz_1.6.0.zip |
| macOS Binary (x86_64) | miaViz_1.6.0.tgz |
| macOS Binary (arm64) | miaViz_1.6.0.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 3.16 | Source Archive |