ChromSCape
Analysis of single-cell epigenomics datasets with a Shiny App
Bioconductor version: Release (3.20)
ChromSCape - Chromatin landscape profiling for Single Cells - is a ready-to-launch user-friendly Shiny Application for the analysis of single-cell epigenomics datasets (scChIP-seq, scATAC-seq, scCUT&Tag, ...) from aligned data to differential analysis & gene set enrichment analysis. It is highly interactive, enables users to save their analysis and covers a wide range of analytical steps: QC, preprocessing, filtering, batch correction, dimensionality reduction, vizualisation, clustering, differential analysis and gene set analysis.
Author: Pacome Prompsy [aut, cre] , Celine Vallot [aut]
Maintainer: Pacome Prompsy <pacome.prompsy at curie.fr>
citation("ChromSCape")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("ChromSCape")
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("ChromSCape")
ChromSCape | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
See More
Suggests | testthat, knitr, markdown, rmarkdown, BiocStyle, Signac, future, igraph, bluster, httr |
Linking To | Rcpp |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | ChromSCape_1.16.0.tar.gz |
Windows Binary (x86_64) | ChromSCape_1.16.0.zip (64-bit only) |
macOS Binary (x86_64) | ChromSCape_1.16.0.tgz |
macOS Binary (arm64) | ChromSCape_1.15.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/ChromSCape |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ChromSCape |
Bioc Package Browser | https://code.bioconductor.org/browse/ChromSCape/ |
Package Short Url | https://bioconductor.org/packages/ChromSCape/ |
Package Downloads Report | Download Stats |