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Bioconductor - clusterExperiment (development version)

clusterExperiment

This is the development version of clusterExperiment; for the stable release version, see clusterExperiment.

Compare Clusterings for Single-Cell Sequencing

Bioconductor version: Development (3.22)

Provides functionality for running and comparing many different clusterings of single-cell sequencing data or other large mRNA Expression data sets.

Author: Elizabeth Purdom [aut, cre, cph], Davide Risso [aut]

Maintainer: Elizabeth Purdom <epurdom at stat.berkeley.edu>

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

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("clusterExperiment")
Details biocViews Clustering, RNASeq, Sequencing, SingleCell, Software Version 2.29.0 In Bioconductor since BioC 3.4 (R-3.3) (8.5 years) License Artistic-2.0 Depends R (>= 3.6.0), SingleCellExperiment, SummarizedExperiment(>= 1.15.4), BiocGenerics Imports methods, NMF, RColorBrewer, ape (>= 5.0), cluster, stats, limma, locfdr, matrixStats, graphics, parallel, BiocSingular, kernlab, stringr, S4Vectors, grDevices, DelayedArray(>= 0.7.48), HDF5Array(>= 1.7.10), Matrix, Rcpp, edgeR, scales, zinbwave, phylobase, pracma, mbkmeans System Requirements URL Bug Reports https://github.com/epurdom/clusterExperiment/issues See More Package Archives

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

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