SCIntRuler: Guiding the Integration of Multiple Single-Cell RNA-Seq Datasets

The accumulation of single-cell RNA sequencing (scRNA-seq) studies highlights the potential benefits of integrating multiple datasets. By augmenting sample sizes and enhancing analytical robustness, integration can lead to more insightful biological conclusions. However, challenges arise due to the inherent diversity and batch discrepancies within and across studies. 'SCIntRuler' addresses these challenges by guiding the integration of multiple scRNA-seq datasets.

Version:	0.99.8
Depends:	R (≥ 4.3.0)
Imports:	Rcpp, Matrix, base, Seurat, SeuratObject, MatrixGenerics, SingleCellExperiment, SummarizedExperiment, dplyr, coin, harmony, ggplot2, gridExtra, cowplot, magrittr, stats
LinkingTo:	Rcpp
Suggests:	BiocStyle, knitr, rmarkdown, testthat (≥ 3.0.0)
Published:	2026-09-16
DOI:	10.32614/CRAN.package.SCIntRuler
Author:	Yue Lyu [aut, cre]
Maintainer:	Yue Lyu <yuelyu0521 at gmail.com>
BugReports:	https://github.com/yuelyu21/SCIntRuler/issues
License:	MIT + file LICENSE
URL:	https://github.com/yuelyu21/SCIntRuler, https://yuelyu21.github.io/SCIntRuler/
NeedsCompilation:	yes
Citation:	SCIntRuler citation info
Materials:	README, NEWS
CRAN checks:	SCIntRuler results

Documentation:

Reference manual:	SCIntRuler.html , SCIntRuler.pdf
Vignettes:	Integrating Single-Cell RNA-seq Datasets with SCIntRuler (source, R code)

Downloads:

Package source:	SCIntRuler_0.99.8.tar.gz
Windows binaries:	r-devel: SCIntRuler_0.99.8.zip, r-release: not available, r-oldrel: not available
macOS binaries:	r-release (arm64): not available, r-oldrel (arm64): SCIntRuler_0.99.8.tgz, r-release (x86_64): SCIntRuler_0.99.8.tgz, r-oldrel (x86_64): SCIntRuler_0.99.8.tgz
Old sources:	SCIntRuler archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=SCIntRuler to link to this page.