NanoCount v1.1.0.post2

NanoCount

NanoCount estimates transcripts abundance from Oxford Nanopore direct-RNA sequencing datasets, using an expectation-maximization approach like RSEM, Kallisto, salmon, etc to handle the uncertainty of multi-mapping reads

Full documentation is available at https://a-slide.github.io/NanoCount/

Disclaimer

Please be aware that NanoCount is a research package that is still under development.

The API, command line interface, and implementation might change without retro-compatibility.

It was tested under Linux Ubuntu 16.04 and in an HPC environment running under Red Hat Enterprise 7.1.

Thank you

citation

The repository is archived at Zenodo. If you use NanoCount please cite as follow:

Josie Gleeson, Adrien Leger, Yair D J Prawer, Tracy A Lane, Paul J Harrison, Wilfried Haerty, Michael B Clark, Accurate expression quantification from nanopore direct RNA sequencing with NanoCount, Nucleic Acids Research, 2021;, gkab1129, https://doi.org/10.1093/nar/gkab1129

licence

MIT (https://mit-license.org/)

Authors

Adrien Leger / aleg@ebi.ac.uk / https://adrienleger.com

The package was inspired from https://github.com/jts/nanopore-rna-analysis by Jared Simpson

Jared Simpson (@jts)

Classifiers

Development Status :: 3 - Alpha
Intended Audience :: Science/Research
Topic :: Scientific/Engineering :: Bio-Informatics
License :: OSI Approved :: MIT License
Programming Language :: Python :: 3