Summary EpiCompare combines a variety of downstream analysis tools to compare, quality control and benchmark different epigenomic datasets. The package requires minimal input from users, can be run with just one line of code and provides all results of the analysis in a single interactive HTML report. EpiCompare thus enables downstream analysis of multiple epigenomic datasets in a simple, effective and user-friendly manner.

Availability and Implementation EpiCompare is available on Bioconductor (≥ v3.15):

https://bioconductor.org/packages/release/bioc/html/EpiCompare.html

All source code is publically available via GitHub:

https://github.com/neurogenomics/EpiCompare

Documentation website

https://neurogenomics.github.io/EpiCompare

EpiCompare DockerHub repository:

https://hub.docker.com/repository/docker/neurogenomicslab/epicompare

Competing Interest Statement
The authors have declared no competing interest.