CRAN/E | Canek

Canek

Batch Correction of Single Cell Transcriptome Data

Installation

About

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.

Citation Canek citation info
martinloza.github.io/Canek/
Bug report File report

Key Metrics

Version 0.2.5
R ≥ 3.5.0
Published 2023-12-08 131 days ago
Needs compilation? no
License MIT
License File
CRAN checks Canek results

Downloads

Yesterday 5
Last 7 days 38 -46%
Last 30 days 244 -13%
Last 90 days 972 -13%
Last 365 days 3.727 +58%

Maintainer

Maintainer

Martin Loza

martin.loza.lopez@gmail.com

Authors

Martin Loza

aut / cre

Diego Diez

aut

Material

README
NEWS
Reference manual
Package source

Vignettes

Run Canek on a toy example

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

Canek archive

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