Decided to compare the Redundans using Canu as reference and Redundans using Racon as reference. Both reference assemblies were just our PacBio data.

Jupyter notebook (GitHub): 20171005_docker_oly_redundans.ipynb

Notebook is also embedded at the end of this post.


Redundans with Canu is better, suggesting that the Canu assembly is the better of the two PacBio assemblies (which we had already suspected).

QUAST comparison using default settings:

Interactive link:

QUAST comparison using –scaffolds setting:

Interactive link:

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from Sam’s Notebook

Genome Assembly – Olympia oyster Redundans/Canu vs. Redundans/Racon
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