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Dune

Improving replicability in single-cell RNA-Seq cell type discovery


Bioconductor version: Release (3.18)

Given a set of clustering labels, Dune merges pairs of clusters to increase mean ARI between labels, improving replicability.

Author: Hector Roux de Bezieux [aut, cre] , Kelly Street [aut]

Maintainer: Hector Roux de Bezieux <hector.rouxdebezieux at berkeley.edu>

Citation (from within R, enter citation("Dune")):

Installation

To install this package, start R (version "4.3") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("Dune")

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("Dune")
Dune Vignette HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews Clustering, GeneExpression, RNASeq, SingleCell, Software, Transcriptomics, Visualization
Version 1.14.0
In Bioconductor since BioC 3.11 (R-4.0) (4 years)
License MIT + file LICENSE
Depends R (>= 3.6)
Imports BiocParallel, SummarizedExperiment, utils, ggplot2, dplyr, tidyr, RColorBrewer, magrittr, gganimate, purrr, aricode
System Requirements
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Suggests knitr, rmarkdown, testthat (>= 2.1.0)
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package Dune_1.14.0.tar.gz
Windows Binary Dune_1.14.0.zip
macOS Binary (x86_64) Dune_1.14.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/Dune
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Dune
Bioc Package Browser https://code.bioconductor.org/browse/Dune/
Package Short Url https://bioconductor.org/packages/Dune/
Package Downloads Report Download Stats