iSEEtree
This is the development version of iSEEtree; for the stable release version, see iSEEtree.
Interactive visualisation for microbiome data
Bioconductor version: Development (3.21)
iSEEtree is an extension of iSEE for the TreeSummarizedExperiment. It leverages the functionality from the miaViz package for microbiome data visualisation to create panels that are specific for TreeSummarizedExperiment objects. Not surprisingly, it also depends on the generic panels from iSEE.
Author: Giulio Benedetti [aut, cre] (ORCID:
Maintainer: Giulio Benedetti <giulio.benedetti at utu.fi>
citation("iSEEtree")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("iSEEtree")
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("iSEEtree")| iSEEtree | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, GUI, Microbiome, ShinyApps, Software, Visualization |
| Version | 1.1.2 |
| In Bioconductor since | BioC 3.20 (R-4.4) (< 6 months) |
| License | Artistic-2.0 |
| Depends | R (>= 4.4.0), iSEE(>= 2.19.2) |
| Imports | grDevices, methods, miaViz, S4Vectors, shiny, mia, shinyWidgets, SingleCellExperiment, SummarizedExperiment, TreeSummarizedExperiment, utils |
| System Requirements | |
| URL | https://github.com/microbiome/iSEEtree |
| Bug Reports | https://github.com/microbiome/iSEEtree/issues |
See More
| Suggests | biomformat, BiocStyle, knitr, MGnifyR, RefManageR, remotes, rmarkdown, scater, testthat (>= 3.0.0), vegan |
| 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 | iSEEtree_1.1.2.tar.gz |
| Windows Binary (x86_64) | iSEEtree_1.1.2.zip |
| macOS Binary (x86_64) | iSEEtree_1.1.2.tgz |
| macOS Binary (arm64) | iSEEtree_1.1.2.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/iSEEtree |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/iSEEtree |
| Bioc Package Browser | https://code.bioconductor.org/browse/iSEEtree/ |
| Package Short Url | https://bioconductor.org/packages/iSEEtree/ |
| Package Downloads Report | Download Stats |