The Collaborative Cross Graphical Genome (CCGG) is represented as a collection of FASTA files, with one file for node and one file for edge for every chromosome. The compressed CCGG Version 1.0 can be downloaded here (Warning: the file is 2.3 GB).
The source code is available at https://github.com/jay1723/GraphicalGenome. It includes a Python-based API for loading, navigating, annotating, and saving the pangenome, and a command-line tool for extracting paths (traditional linear genome assemblies) from the CCGG. For details about how to use the CCGG API, please check the manual page.
CCGG
Collaborative Cross Graphical Genome
An example of the FASTA representation of CCGG Pan-genome structure.
If you have any question or comment, please contact at ziwei75@live.unc.edu or hangsu@email.unc.edu.