miaViz
This is thereleased version of miaViz; for the devel version, seemiaViz.
Microbiome Analysis Plotting and Visualization
Bioconductor version: Release (3.22)
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]
ORCID: 0000-0002-8563-8884, Felix G.M. Ernst [aut] ORCID: 0000-0001-5064-0928, Leo Lahti [aut] ORCID: 0000-0001-5537-637X, Basil Courbayre [ctb], Giulio Benedetti [ctb] ORCID: 0000-0002-8732-7692, Théotime Pralas [ctb], Chouaib Benchraka [ctb], Sam Hillman [ctb], Geraldson Muluh [ctb], Noah De Gunst [ctb], Ely Seraidarian [ctb], Himmi Lindgren [ctb], Akewak Jeba [ctb] ORCID: 0009-0007-1347-7552, Vivian Ikeh [ctb]
Maintainer: Tuomas Borman <tuomas.v.borman at utu.fi>
citation("miaViz")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("miaViz")For older versions of R, please refer to the appropriateBioconductor 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 | 1.18.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (4.5 years) |
| License | Artistic-2.0 | fileLICENSE |
| Depends | R (>= 4.1.0),ggplot2,ggraph (>= 2.0),mia(>= 1.13.0),SummarizedExperiment,TreeSummarizedExperiment |
| Imports | ape,BiocGenerics,BiocParallel,DelayedArray,DirichletMultinomial,dplyr,ggnewscale,ggrepel,ggtree, methods,rlang,S4Vectors,scales,scater,SingleCellExperiment, stats,tibble,tidygraph,tidyr,tidytext,tidytree,viridis |
| System Requirements | |
| URL | https://github.com/microbiome/miaViz |
| Bug Reports | https://github.com/microbiome/miaViz/issues |
See More
| Suggests | beeswarm,BiocStyle,bluster,circlize,ComplexHeatmap,ggh4x,knitr,mediation,miaTime,patchwork,rmarkdown,shadowtext,testthat,vegan,vipor |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | iSEEtree |
| Suggests Me | HoloFoodR,MGnifyR,mia,miaSim,miaTime |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | miaViz_1.18.0.tar.gz |
| Windows Binary (x86_64) | miaViz_1.18.0.zip |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| 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 3.22 | Source Archive |