Hello everyone,
I would like to present ChromSCape, a Bioconductor R package and Shiny application for both biologists and bioinformaticians to analyze single-cell epigenomic datasets (scChIP-seq, scATAC-seq, scCUT&TAG ... ) in an user friendly and interactive way.
To install the package, make sure you have R4.0 and Bioconductor 3.12
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("ChromSCape")
To start, just load the package and launch the app :
launchApp()
-> If you want more details on the hows and whats of the app, check the vignette
-> If you don't have data yet, here are some publicly available single-cell epigenomic datasets you can directly input in ChromSCape
-> If you are interested about how it compares to other tools on scATAC-seq and it's use on scChIP-seq, scCUT&TAG and scChIL-seq, please read the article (open acess).
-> If you have issues / bugs / ideas for improvements, please check the GitHub
-> If you are just curious, check the look & feel with a small demo
Cheers,
Pacôme
