Canek: Batch Correction of Single Cell Transcriptome Data

Non-linear/linear hybrid method for batch-effect correction that uses Mutual Nearest Neighbors (MNNs) to identify similar cells between datasets. Reference: Loza M. et al. (NAR Genomics and Bioinformatics, 2020) <doi:10.1093/nargab/lqac022>.

Version: 0.2.5
Depends: R (≥ 3.5.0)
Imports: FNN, irlba, numbers, fpc, bluster, igraph, matrixStats, utils
Suggests: testthat (≥ 2.1.0), Seurat, SingleCellExperiment, SummarizedExperiment, scater, batchelor, scran, knitr, rmarkdown, patchwork, ggplot2
Published: 2023-12-08
DOI: 10.32614/CRAN.package.Canek
Author: Martin Loza ORCID iD [aut, cre], Diego Diez ORCID iD [aut]
Maintainer: Martin Loza <martin.loza.lopez at>
License: MIT + file LICENSE
NeedsCompilation: no
Citation: Canek citation info
Materials: README NEWS
CRAN checks: Canek results


Reference manual: Canek.pdf
Vignettes: Run Canek on a toy example


Package source: Canek_0.2.5.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): Canek_0.2.5.tgz, r-oldrel (arm64): Canek_0.2.5.tgz, r-release (x86_64): Canek_0.2.5.tgz, r-oldrel (x86_64): Canek_0.2.5.tgz
Old sources: Canek archive


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