miaViz
Microbiome Analysis Plotting and Visualization
Bioconductor version: Release (3.20)
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] , Théotime Pralas [ctb], Nitesh Turaga [ctb], Chouaib Benchraka [ctb], Sam Hillman [ctb], Muluh Muluh [ctb], Noah De Gunst [ctb], Ely Seraidarian [ctb], Himmi Lindgren [ctb], Vivian Ikeh [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 | 1.14.0 |
| 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(>= 1.13.0), ggplot2, ggraph (>= 2.0) |
| Imports | methods, stats, S4Vectors, BiocGenerics, BiocParallel, DelayedArray, scater, ggtree, ggnewscale, viridis, tibble, tidytext, tidytree, tidygraph, rlang, purrr, tidyr, dplyr, ape, DirichletMultinomial, ggrepel, SingleCellExperiment |
| System Requirements | |
| URL |
See More
| Suggests | knitr, rmarkdown, BiocStyle, testthat, patchwork, vegan, bluster, ComplexHeatmap, circlize |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | iSEEtree |
| Suggests Me | MGnifyR, mia, miaSim |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | miaViz_1.14.0.tar.gz |
| Windows Binary (x86_64) | miaViz_1.14.0.zip |
| macOS Binary (x86_64) | miaViz_1.14.0.tgz |
| macOS Binary (arm64) | miaViz_1.14.0.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 |