EpiMINE

EpiMINE is a program designed for mining epigenomic data. This application performs genome wide based quantitative and correlative analysis between different annotated or raw chip-seq like datasets in the regions of interest (RI). Apart from this the tool takes the advantage in linking results with expression 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

Features

Enrichment
Co-existence
Quantification
Profiling
Differential enrichment
Classification
Predicting dependencies between datasets

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