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ChIP-RNA-seqPRO: A strategy for identifying regions of epigenetic deregulation associated with aberrant transcript splicing and RNA-editing sites. Runnable python scripts packaged together with customized annotation libraries, demo data input and README guide.
9/26 : v1.1 Updated MAIN_IV to debug error thrown by python pandas no longer supporting 'subset'.
This code will no longer be actively maintained/updated here. A cloud-based resource for comparative analysis of epigenetic, sequence variation, and expression datasets is now available. Please visit the Cloudomics, project for cloud-based resources: https://sourceforge.net/projects/cloudomics-for-aws/
Features
- Tool for comparative analysis of a broad variety of epigenomic (ChIPseq, MBDseq, etc.) and RNA-based sequencing paired sample datasets
- If you use this tool or any of the annotation libraries please include the following reference: Champion M., Hlady R., Yan H., Evans J., Nie J., Lee J., Bogenberger J., Nandakumar K., Davila J., Moore R., Nair A., O'Brien D., Zhu Y., Kortüm K., Ordog T., Zhang Z., Joseph R., Kocher J., Jonasch E., Robertson K., Tibes R. and H. Ho T. (2015). Bioinformatics Strategies for Identifying Regions of Epigenetic Deregulation Associated with Aberrant Transcript Splicing and RNA-editing. In Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms, pages 163-170. DOI: 10.5220/0005248001630170
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Bio-InformaticsLicense
GNU General Public License version 2.0 (GPLv2)Follow ChIP-RNA-seqPRO
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