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Tools to help choosing a reference assembly.

Project description

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.


  • 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:


See the LICENSE file included in the refchooser distribution.


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.

Project details

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