mparker2 / xpore

Detection of differential RNA modifications from direct RNA sequencing

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xPore is a Python package for identification and quantification of differential RNA modifications from direct RNA sequencing.

Installation

xPore requires Python3. To install the latest release with PyPI (recommended), run

$ pip install xpore 
$ pyensembl install --release 91 --species homo_sapiens  # please specify the compatible Ensembl release with your data when you install it.

Documentation

Please refer to the xPore documentation (https://xpore.readthedocs.io) for additional information, a quick start guide, and details on the data processing and output file format.

xPore is described in detail in a preprint (https://www.biorxiv.org/content/10.1101/2020.06.18.160010v1)

Release History

The current release is xPore v1.0.

Please refer to the github release history for previous releases: https://github.com/GoekeLab/xpore/releases

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Citing xPore

If you use xPore in your research, please cite

Ploy N. Pratanwanich, et al. "Detection of differential RNA modifications from direct RNA sequencing of human cell lines". bioRxiv (2020) doi: https://doi.org/10.1101/2020.06.18.160010

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Contact

xPore is maintained by Ploy N. Pratanwanich and Jonathan Goeke from the Genome Institute of Singapore, A*STAR.

If you want to contribute, please leave an issue.

Thank you!