SCENIC

SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.

For more details and installation instructions see the tutorials: Introduction and setup, and running SCENIC.

The output from the examples is available at: http://scenic.aertslab.org/examples/ .

Frequently asked questions: FAQ

News

24/01/2019

• Tutorial for importing results from loom files/pySCENIC

20/06/2018

• Added function export2scope() (see http://scope.aertslab.org/). Version bump to 1.0.

01/06/2018

• Updated SCENIC pipeline to support the new version of RcisTarget and AUCell.

01/05/2018

• RcisTarget is now available in Bioconductor. The new databases can be downloaded from [https://resources.aertslab.org/cistarget/].

30/03/2018 New releases:

• pySCENIC: lightning-fast python implementation of the SCENIC pipeline.
• Arboreto package including GRNBoost2 and scalable GENIE3: Easy to install Python library that supports distributed computing. It allows fast co-expression module inference (Step1) on large datasets, compatible with both, the R and python implementations of SCENIC.
• Drosophila databases for RcisTarget