mbkmeans
Mini-batch K-means Clustering for Single-Cell RNA-seq
Bioconductor version: 3.24 · Package version: 1.29.0
Implements the mini-batch k-means algorithm for large datasets, including support for on-disk data representation.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("mbkmeans")Details
| Maintainer | Davide Risso <risso.davide@gmail.com> |
| Author | Yuwei Ni [aut, cph], Davide Risso [aut, cre, cph], Stephanie Hicks [aut, cph], Elizabeth Purdom [aut, cph] |
| License | MIT + file LICENSE |
| Bug Reports | https://github.com/drisso/mbkmeans/issues |
| System Requirements | C++11 |
| Downloads rank | 1082 |
| Source branch | devel |
| biocViews | Clustering, GeneExpression, RNASeq, Sequencing, SingleCell, Software, Transcriptomics |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | mbkmeans_1.29.0.tar.gz |
| Windows binary (x86_64) | mbkmeans_1.29.0.zip |
| macOS binary (arm64) | mbkmeans_1.29.0.tgz |
| macOS binary (x86_64) | mbkmeans_1.29.0.tgz |
Dependencies
Depends: R (>= 3.6)
Imports: methods, DelayedArray, Rcpp, S4Vectors, SingleCellExperiment, SummarizedExperiment, ClusterR, benchmarkme, Matrix, BiocParallel
LinkingTo: Rcpp, RcppArmadillo (>= 0.7.2), Rhdf5lib, beachmat, ClusterR
Suggests: beachmat, HDF5Array, Rhdf5lib, BiocStyle, TENxPBMCData, scater, DelayedMatrixStats, bluster, knitr, testthat, rmarkdown
Reverse dependencies
Imports Me (1): clusterExperiment
Suggests Me (3): bluster, concordexR, scDblFinder