EpiCompare: R package for the comparison and quality control of epigenomic peak files

Author:

Choi Sera12ORCID,Schilder Brian M12ORCID,Abbasova Leyla34,Murphy Alan E12ORCID,Skene Nathan G12

Affiliation:

1. Department of Brain Sciences, Faculty of Medicine, Imperial College London , London W12 0BZ, UK

2. UK Dementia Research Institute at Imperial College London , London W12 0BZ, UK

3. Centre for Developmental Neurobiology, Institute of Psychiatry, Psychology and Neuroscience, King’s College London , London SE1 1UL, UK

4. MRC Centre for Neurodevelopmental Disorders, King’s College London , London SE1 1UL, UK

Abstract

Abstract 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 publicly available via GitHub: https://github.com/neurogenomics/EpiCompare; documentation website https://neurogenomics.github.io/EpiCompare; and EpiCompare DockerHub repository: https://hub.docker.com/repository/docker/neurogenomicslab/epicompare.

Funder

UK Medical Research Council

Alzheimer's Society and Alzheimer's Research UK

Publisher

Oxford University Press (OUP)

Subject

Cell Biology,Developmental Biology,Embryology,Anatomy

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