Tools to help choose a reference from a list of assemblies.
The refchooser project was developed by the United States Food and Drug Administration, Center for Food Safety and Applied Nutrition.
Free software
Documentation: https://refchooser.readthedocs.io
Source Code: https://github.com/CFSAN-Biostatistics/refchooser
PyPI Distribution: https://pypi.python.org/pypi/refchooser
Features
Print a table of metrics to help choose an assembly from a collection.
N50
N90
Number of contigs
Assembly length
Mean mash distance to all other assemblies
Citing refchooser
To cite refchooser, please reference the refchooser GitHub repository:
License
See the LICENSE file included in the refchooser distribution.
History
0.2.1 (2019-08-20)
Detect and exclude empty assemblies.
0.2.0 (2019-07-12)
Add N50 and N90 metrics.
Calculate a simple “Score” for each assembly, the N50/Distance ratio.
Combine all metrics in a single table sortable by any column.
0.1.0 (2019-06-21)
Initial version.
2 maintainers
Metadata
2 maintainers
Release files for refchooser 0.2.1
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| refchooser-0.2.1.tar.gz | 22.8 kB | Details |
Release files / refchooser-0.2.1.tar.gz
| Download URL | refchooser-0.2.1.tar.gz |
|---|---|
| Size | 22.8 kB |
| Tags | Source |
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SHA-256 checksum How to use checksums |
5742f625ca99066ac1481d4034667184ec64552534b686b5ceb53e5fb96410a6
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| Uploaded via |
Python-urllib/3.6
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