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 data container. It provides interactive panel designs to explore hierarchical datasets, such as the microbiome and cell lines.
Author: Giulio Benedetti [aut, cre] (ORCID:
Maintainer: Giulio Benedetti <giulio.benedetti at utu.fi>
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 |
| iSEEtree | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, GUI, Microbiome, ShinyApps, Software, Visualization |
| Version | 1.1.4 |
| 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 | ape, ggplot2, ggtree, grDevices, methods, miaViz, purrr, S4Vectors, shiny, mia, shinyWidgets, SingleCellExperiment, SummarizedExperiment, tidygraph, TreeSummarizedExperiment, utils |
| System Requirements | |
| URL | https://github.com/microbiome/iSEEtree |
| Bug Reports | https://github.com/microbiome/iSEEtree/issues |
See More
| Suggests | biomformat, BiocStyle, knitr, 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_1.1.4.tar.gz |
| Windows Binary (x86_64) | iSEEtree_1.1.4.zip |
| macOS Binary (x86_64) | iSEEtree_1.1.4.tgz |
| macOS Binary (arm64) | iSEEtree_1.1.4.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 |