simplifyEnrichment
Simplify Functional Enrichment Results
Bioconductor version: 3.24 · Package version: 2.7.0
A new clustering algorithm, "binary cut", for clustering similarity matrices of functional terms is implemeted in this package. It also provides functions for visualizing, summarizing and comparing the clusterings.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("simplifyEnrichment")Details
| Maintainer | Zuguang Gu <guzuguang@suat-sz.edu.cn> |
| Author | Zuguang Gu [aut, cre] (ORCID: <https://orcid.org/0000-0002-7395-8709>) |
| License | MIT + file LICENSE |
| URL | https://github.com/jokergoo/simplifyEnrichment, https://simplifyEnrichment.github.io |
| Downloads rank | 1611 |
| Source branch | devel |
| biocViews | Clustering, GO, GeneSetEnrichment, Software, Visualization |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | simplifyEnrichment_2.7.0.tar.gz |
| Windows binary (x86_64) | simplifyEnrichment_2.7.0.zip |
| macOS binary (arm64) | simplifyEnrichment_2.7.0.tgz |
| macOS binary (x86_64) | simplifyEnrichment_2.7.0.tgz |
Dependencies
Depends: R (>= 4.1.0)
Imports: simona, ComplexHeatmap (>= 2.7.4), grid, circlize, GetoptLong, digest, tm, GO.db, AnnotationDbi, slam, methods, clue, grDevices, stats, utils, cluster (>= 1.14.2), colorspace, GlobalOptions (>= 0.1.0)
Suggests: knitr, ggplot2, cowplot, mclust, apcluster, MCL, dbscan, igraph, gridExtra, dynamicTreeCut, testthat, gridGraphics, flexclust, BiocManager, InteractiveComplexHeatmap (>= 0.99.11), shiny, shinydashboard, cola, hu6800.db, rmarkdown, genefilter, gridtext, fpc
Reverse dependencies
Suggests Me (3): cola, InteractiveComplexHeatmap, simona