EpiMINE
program for mining epigenomic data
...It is available both in graphical user interface and in command line form. It can be executed in Mac and Linux platforms.
Dependencies:
python >= 2.7 version
python packages: rpy2(v2.8.1), pysam(>0.8.4), pybedtools(v0.7.7) and wxpython (only for GUI form)
R with following packages: gplots, ggplot2, RColorBrewer, FactoMineR, kernlab, bnlearn, igraph, fastcluster, caret and ROCR
bedtools (2.16/2.17/2.25)
Manual & different forms of EpiMINE can be downloaded is available under "Browse Files" section
For any help, you can reach us at epimine.help@gmail.com