CIDER: Meta-Clustering for Single-Cell Data Integration and Evaluation

A workflow of (a) meta-clustering based on inter-group similarity measures and (b) a ground-truth-free test metric to assess the biological correctness of integration in real datasets. See Hu Z, Ahmed A, Yau C (2021) <doi:10.1101/2021.03.29.437525> for more details.

Version: 0.99.1
Depends: R (≥ 3.5.0)
Imports: limma (≥ 3.42.0), edgeR (≥ 3.28.0), stats (≥ 3.6.2), foreach (≥ 1.4.7), Seurat (≥ 3.1.0), utils (≥ 3.6.2), pheatmap (≥ 1.0.0), dbscan (≥ 1.1-5), kernlab (≥ 0.9-29), doParallel, igraph, parallel, graphics, ggplot2, viridis
Suggests: knitr, rmarkdown, testthat, statmod (≥ 1.2.2), cowplot
Published: 2022-09-19
Author: Zhiyuan Hu ORCID iD [aut, cre], Christopher Yau ORCID iD [aut]
Maintainer: Zhiyuan Hu <zhiyuan.cheryl.hu at gmail.com>
BugReports: https://github.com/zhiyhu/CIDER/issues
License: MIT + file LICENSE
URL: https://github.com/zhiyhu/CIDER, https://zhiyhu.github.io/CIDER/
NeedsCompilation: no
CRAN checks: CIDER results

Documentation:

Reference manual: CIDER.pdf

Downloads:

Package source: CIDER_0.99.1.tar.gz
Windows binaries: r-devel: CIDER_0.99.0.zip, r-release: CIDER_0.99.1.zip, r-oldrel: CIDER_0.99.1.zip
macOS binaries: r-release (arm64): CIDER_0.99.1.tgz, r-oldrel (arm64): CIDER_0.99.1.tgz, r-release (x86_64): CIDER_0.99.1.tgz, r-oldrel (x86_64): CIDER_0.99.1.tgz
Old sources: CIDER archive

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