miaViz
Microbiome Analysis Plotting and Visualization
Bioconductor version: Release (3.19)
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] , Basil Courbayre [ctb], Giulio Benedetti [ctb]
Maintainer: Tuomas Borman <tuomas.v.borman at utu.fi>
citation("miaViz")
):
Installation
To install this package, start R (version "4.4") 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 | 1.12.0 |
In Bioconductor since | BioC 3.13 (R-4.1) (3.5 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, ggrepel, SingleCellExperiment |
System Requirements | |
URL |
See More
Suggests | knitr, rmarkdown, BiocStyle, testthat, patchwork, vegan, microbiomeDataSets, bluster |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | MGnifyR, miaSim |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | miaViz_1.12.0.tar.gz |
Windows Binary | miaViz_1.12.0.zip (64-bit only) |
macOS Binary (x86_64) | miaViz_1.12.0.tgz |
macOS Binary (arm64) | miaViz_1.12.0.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 |