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](https://gist.github.com/nicdemon/370fdc7e00f463162eca5f92136c10a5#file-caribou-poc-ipynb).

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](https://github.com/user-attachments/files/18065723/30_genomes.fna.gz)
* [CSV file containing the taxonomic classification of the 30 bacterial genomes](https://github.com/user-attachments/files/18065724/30_genomes.csv)
    > Visualization is available on the [gist](https://gist.github.com/nicdemon/370fdc7e00f463162eca5f92136c10a5#file-30_genomes-csv)
* [Fasta file containing 3 host genomes](https://github.com/user-attachments/files/18067053/cucurbita_sample_3.fna.gz)
* [CSV file containing the taxonomic classification of the 3 host genomes](https://github.com/user-attachments/files/18067054/cucurbita_sample_3.csv)
    > Visualization is available on the [gist](https://gist.github.com/nicdemon/370fdc7e00f463162eca5f92136c10a5#file-3_host_genomes-csv)