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

Cepo for the identification of differentially stable genes

Bioconductor version: Development (3.19)

Defining the identity of a cell is fundamental to understand the heterogeneity of cells to various environmental signals and perturbations. We present Cepo, a new method to explore cell identities from single-cell RNA-sequencing data using differential stability as a new metric to define cell identity genes. Cepo computes cell-type specific gene statistics pertaining to differential stable gene expression.

Author: Hani Jieun Kim [aut, cre] , Kevin Wang [aut]

Maintainer: Hani Jieun Kim <hani.kim127 at gmail.com>

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


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Cepo method for differential stability analysis of scRNA-seq data HTML R Script
Reference Manual PDF


biocViews Classification, DifferentialExpression, GeneExpression, Sequencing, SingleCell, Software
Version 1.9.0
In Bioconductor since BioC 3.14 (R-4.1) (2.5 years)
License MIT + file LICENSE
Depends GSEABase, R (>= 4.1)
Imports DelayedMatrixStats, DelayedArray, HDF5Array, S4Vectors, methods, SingleCellExperiment, SummarizedExperiment, ggplot2, rlang, grDevices, patchwork, reshape2, BiocParallel, stats, dplyr
System Requirements
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Suggests knitr, rmarkdown, BiocStyle, testthat, covr, UpSetR, scater, scMerge, fgsea, escape, pheatmap, patchwork
Linking To
Depends On Me
Imports Me scClassify
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Source Package Cepo_1.9.0.tar.gz
Windows Binary Cepo_1.9.0.zip
macOS Binary (x86_64) Cepo_1.9.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/Cepo
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Cepo
Bioc Package Browser https://code.bioconductor.org/browse/Cepo/
Package Short Url https://bioconductor.org/packages/Cepo/
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