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
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
File details
Details for the file refchooser-0.2.1.tar.gz.
File metadata
- Download URL: refchooser-0.2.1.tar.gz
- Upload date:
- Size: 22.8 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via:
Python-urllib/3.6
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
5742f625ca99066ac1481d4034667184ec64552534b686b5ceb53e5fb96410a6
|
|
| MD5 |
4dcf131b11ebd2454aae3ed659a9621d
|
|
| BLAKE2b-256 |
9f3c3996795b3ad3251c8ff60143afe49ced45b104771315920a297246b3e015
|
