Similar tools

Name	URL	Web	Visualization	Command line	Scalable/HPC	Source code	Data filtering	Database provided	User-provided database support	Annotation analysis	Enrichment analysis	Cell type enrichment analysis	Regulatory similarity	Differential regulatory analysis	Updated in 2015
BEDTools	https://github.com/arq5+/bedtools2	Via other tools	-	+	-	+	+	-	+	+	+	-	-	-	+
BioMart Enrichment Tool	http://central.biomart.org/enrichment/#/gui/Enrichment/	+	-	-	-	-	+	+	+	-	+	-	-	-	+
ChIPSeeker	http://www.bioconductor.org/packages/release/bioc/html/ChIPseeker.html	-	+	+	-	+	+	Limited	+	-	+	-	-	-	+
ENCODE ChIP-Seq Significance Tool	http://encodeqt.stanford.edu	+	-	-	-	-	+	+	-	-	+	Limited	-	-	+
Enrichr	http://amp.pharm.mssm.edu/Enrichr/	+	+	Limited	-	Limited	-	+	-	-	+	+	-	-	+
EpiExplorer	http://epiexplorer.mpi-inf.mpg.de/	+	+	-	-	Through registration	+	+	+	+	Via other tools	-	-	-	-
EpiGraph	http://epigraph.mpi-inf.mpg.de/	+	-	-	-	-	+	+	+	+	+	-	-	-	-
EpiRegNet	http://wanglab.hku.hk/EpiRegNet/	+	+	-	-	-	+	+	+	-	+	-	-	-	-
fGWAS	https://github.com/joepickrell/fgwas	-	-	+	-	+	+	-	+	-	+	-	-	-	+
FORGE	http://browser.1000genomes.org/Homo_sapiens/UserData/Forge?db=core	+	+	+	-	+	+	Limited	-	+	+	+	-	-	+
Genome Track Analyzer (AnCorr)	http://ancorr.eimb.ru/	+	-	-	-	-	+	Limited	+	-	-	-	+	-	+
GenomeRunner	http://www.integrativegenomics.org/	+	+	+	+	+	+	+	+	+	+	+	+	+	+
GenometriCorr	http://genometricorr.sourceforge.net/	Via other tools	+	+	-	+	-	Limited	+	-	+	-	-	-	+
Genomic Association Tester (GAT)	https://github.com/AndreasHeger/gat	-	-	+	-	+	-	-	+	+	+	-	-	-	+
Genomic HyperBrowser	https://hyperbrowser.uio.no/hb/	+	Via other tools	Limited	-	-	+	+	+	+	+	-	+	-	+
GoShifter	https://www.broadinstitute.org/mpg/goshifter/	-	-	+	-	+	-	-	+	-	+	-	-	-	+
GREAT	http://bejerano.stanford.edu/great/public/html	+	+	+	-	+	-	Limited	-	-	+	-	-	-	+
GREGOR	https://genome.sph.umich.edu/wiki/GREGOR	-	-	+	+	+	-	+	-	-	+	+	-	-	+
INRICH	https://atgu.mgh.harvard.edu/inrich/started.html	-	-	+	-	+	-	-	+	-	+	-	-	-	-
LOLA	http://databio.org/lola/	-	-	+	+	+	-	Limited	+	-	+	-	-	-	+
PodBat	http://www.podbat.org	+	+	+	-	+	-	Limited	+	+	+	-	-	-	-
regioneR	https://bioconductor.org/packages/release/bioc/html/regioneR.html	-	Limited	+	+	+	+	Limited	+	-	+	-	-	-	+
The Genboree Epigenome Toolset	http://www.genboree.org/site/epigenomics_toolset	+	Via other tools	-	-	-	+	+	-	-	+	-	+	-	+