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

Mini-batch K-means Clustering for Single-Cell RNA-seq

Bioconductor version: Development (3.19)

Implements the mini-batch k-means algorithm for large datasets, including support for on-disk data representation.

Author: Yuwei Ni [aut, cph], Davide Risso [aut, cre, cph], Stephanie Hicks [aut, cph], Elizabeth Purdom [aut, cph]

Maintainer: Davide Risso <risso.davide at>

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


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biocViews Clustering, GeneExpression, RNASeq, Sequencing, SingleCell, Software, Transcriptomics
Version 1.19.0
In Bioconductor since BioC 3.9 (R-3.6) (5 years)
License MIT + file LICENSE
Depends R (>= 3.6)
Imports methods, DelayedArray, Rcpp, S4Vectors, SingleCellExperiment, SummarizedExperiment, ClusterR, benchmarkme, Matrix, BiocParallel
System Requirements C++11
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Suggests beachmat, HDF5Array, Rhdf5lib, BiocStyle, TENxPBMCData, scater, DelayedMatrixStats, bluster, knitr, testthat, rmarkdown
Linking To Rcpp, RcppArmadillo (>= 0.7.2), Rhdf5lib, beachmat, ClusterR
Depends On Me
Imports Me clusterExperiment
Suggests Me bluster, scDblFinder
Links To Me
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