Proof of concept

To describe the internal use of the Caribou pipeline as well as illustrate each steps with their inputs and outputs, a proof-of-concept was built using dummy data.

This proof-of-concept is supplied as a jupyter notebook hosted on github gists.

The dummy data used in this example consists of 30 bacterial genomes and 3 cucurbita genomes (host plant).

This data was also used to test and debug the Caribou analysis pipeline.

The data used for this proof-of-concept is available on this wiki at the following links:

• Fasta file containing 30 bacterial genomes
• CSV file containing the taxonomic classification of the 30 bacterial genomes

  Visualization is available on the gist

• Fasta file containing 3 host genomes
• CSV file containing the taxonomic classification of the 3 host genomes

  Visualization is available on the gist