iSEEtree
This is thereleased version of iSEEtree; for the devel version, seeiSEEtree.
Interactive visualisation for microbiome data
Bioconductor version: Release (3.22)
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: 0000-0002-8732-7692, Ely Seraidarian [ctb] ORCID: 0009-0008-8602-093X, Leo Lahti [aut] ORCID: 0000-0001-5537-637X
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")BiocManager::install("iSEEtree")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("iSEEtree")| iSEEtree | HTML | R Script |
| iSEEtree | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport,GUI,Microbiome,ShinyApps,Software,Visualization |
| Version | 1.4.0 |
| In Bioconductor since | BioC 3.20 (R-4.4) (1 year) |
| License | Artistic-2.0 |
| Depends | R (>= 4.4.0),iSEE(>= 2.19.4) |
| 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 | miaDash |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | iSEEtree_1.4.0.tar.gz |
| Windows Binary (x86_64) | iSEEtree_1.4.0.zip |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| 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 |
| Old Source Packages for BioC 3.22 | Source Archive |