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 (3.17)
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")
):
Installation
To install this package, start R (version
“4.3”) and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") # The following initializes usage of Bioc devel BiocManager::install(version='devel') BiocManager::install("Cepo")
For older versions of R, please refer to the appropriate
Bioconductor release.
Documentation
To view documentation for the version of this package installed
in your system, start R and enter:
browseVignettes("Cepo")
Cepo method for differential stability analysis of scRNA-seq data | ||
Reference Manual |
Details
biocViews | Classification, DifferentialExpression, GeneExpression, Sequencing, SingleCell, Software |
Version | 1.5.0 |
In Bioconductor since | BioC 3.14 (R-4.1) (1 year) |
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 |
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 |
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