CREMA

CREMA is an online tool which automatically infers regulatory networks from chromatin accessibility (ATAC/DNase-seq) or enhancer mark (ChIP-seq) data. CREMA directly processes raw data of a set of samples (FASTQ files), identifies cis-regulatory elements (CREs) , infers key transcription factors driving the observed chromatin state changes across the experimental conditions, and makes detailed predictions regarding their regulatory roles.

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Topics

ChIP-seq Gene regulation Transcription factors and regulatory sites Epigenomics DNA binding sites

Details

License:: Other
Maturity:: Mature
Cost:: Free of charge
Tool Type:: api
Added:: 7/31/2023
Last Updated:: 7/31/2023

Operations

DNA binding site prediction
Gene regulatory network prediction
Peak calling
Transcriptional regulatory element prediction
cis-regulatory element prediction

Documentation

Quick start guide

https://crema.unibas.ch/CREMA/static-pages/how-to-submit.html

CREMA HOWTO

Links

Repository

https://crema.unibas.ch

(The web service URL)

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