NanoCount v1.1.0.post2
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/)
Copyright © 2020 Adrien Leger
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
1 maintainer
Release files for NanoCount 1.1.0.post2
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| nanocount-1.1.0.post2.tar.gz | 11.2 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| NanoCount-1.1.0.post2-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 24.2 kB
Release files / nanocount-1.1.0.post2.tar.gz
| Download URL | nanocount-1.1.0.post2.tar.gz |
|---|---|
| Size | 11.2 kB |
| Tags | Source |
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No |
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Release files / NanoCount-1.1.0.post2-py3-none-any.whl
| Download URL | NanoCount-1.1.0.post2-py3-none-any.whl |
|---|---|
| Size | 13.0 kB |
| Tags | Python 3 |
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Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
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