This is the Linux app named ChIP-RNA-seqPRO to run in Linux online whose latest release can be downloaded as cloudclientID.zip. It can be run online in the free hosting provider OnWorks for workstations.
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ChIP-RNA-seqPRO to run in Linux online
DESCRIPTION
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
Audience
Science/Research
Programming Language
Unix Shell, Python
This is an application that can also be fetched from https://sourceforge.net/projects/chiprnaseqpro/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
