Cepo

DOI:10.18129/B9.bioc.Cepo

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, seeCepo.

Cepo for the identification of differentially stable genes

Bioconductor version: 3.14

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

Installation

To install this package, start R (version "4.1") and enter:

if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("Cepo")

For older versions of R, please refer to the appropriateBioconductor release.

Documentation

查看文档的版本包age installed in your system, start R and enter:

browseVignettes("Cepo")

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

Details

biocViews	Classification,DifferentialExpression,GeneExpression,Sequencing,SingleCell,Software
Version	1.0.0
In Bioconductor since	BioC 3.14 (R-4.1) (< 6 months)
License	MIT + fileLICENSE
Depends	GSEABase, R (>= 4.1)
Imports	DelayedMatrixStats,DelayedArray,HDF5Array,S4Vectors, methods,SingleCellExperiment,SummarizedExperiment,ggplot2,rlang, grDevices,patchwork,reshape2,BiocParallel, stats
LinkingTo
Suggests	knitr,rmarkdown,BiocStyle,testthat,covr,UpSetR,scater,scMerge,fgsea,escape,pheatmap,patchwork
SystemRequirements
Enhances
URL
Depends On Me
Imports Me	scClassify
Suggests Me
Links To Me
Build Report

Package Archives

Followbob 体育网址 instructions to use this package in your R session.

Source Package	Cepo_1.0.0.tar.gz
Windows Binary	Cepo_1.0.0.zip
macOS 10.13 (High Sierra)	Cepo_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/Cepo
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/Cepo
Package Short Url	//www.anjoumacpherson.com/packages/Cepo/
Package Downloads Report	Download Stats