epiMINE specifications
- Unique identifier:
- OMICS_13854
- Interface:
- Command line interface, Graphical user interface
- Input data:
- A file with set of target regions, a tab separated file with all chromosomes and its length
- Operating system:
- Unix/Linux, Mac OS
- Computer skills:
- Advanced
- Stability:
- Stable
- Maintained:
- Yes
- Software type:
- Application/Script
- Restrictions to use:
- None
- Input format:
- BED, BAM
- Programming languages:
- Python
- Version:
- 2.25
- Requirements:
- Rpy2, PySam, pybedtools, wxPython, gplots, ggplot2, RColorBrewer, FactoMineR, kernlab, bnlearn, igraph, fastcluster, caret, ROCR, bedtools
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Publications
-
(Jammula and Pasini, 2016)
EpiMINE, a computational program for mining epigenomic data.
Epigenetics Chromatin.
PMID: 27708717 DOI: 10.1186/s13072-016-0095-z
Institution(s)
Department of Experimental Oncology, European Institute of Oncology, Milan, Italy
Funding source(s)
The work in the Pasini laboratory was supported by grants from the Italian Association for Cancer Research (AIRC), the Italian Ministry of Health, the Umberto Veronesi Foundation (FUV) and by fellowships from the Italian Foundation for Cancer Research (FIRC).
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