clusterExperiment
Compare Clusterings for Single-Cell Sequencing
Bioconductor version: 3.23 · Package version: 2.32.0
Provides functionality for running and comparing many different clusterings of single-cell sequencing data or other large mRNA Expression data sets.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("clusterExperiment")Details
| Maintainer | Elizabeth Purdom <epurdom@stat.berkeley.edu> |
| Author | Elizabeth Purdom [aut, cre, cph], Davide Risso [aut] |
| License | Artistic-2.0 |
| Bug Reports | https://github.com/epurdom/clusterExperiment/issues |
| Downloads rank | 662 |
| Source branch | RELEASE_3_23 |
| biocViews | Clustering, RNASeq, Sequencing, SingleCell, Software |
Documentation
Download
Dependencies
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
LinkingTo: Rcpp
Suggests: BiocStyle, knitr, testthat, MAST, Rtsne, scran, igraph, rmarkdown