An FM-index representation of a de Bruijn graph.
The code in this repository is a stand-alone version of the FM-index from SGA (github/jts/sga). It is licensed under GPLv3.
The code has no dependencies and should build by just running:
To test the code is functioning correctly, you can run:
This will download human chromosome 20, index it with SGA then perform test queries using dbgfm. You will need to modify the Makefile to point to your version of SGA. This requires bwtdisk is installed.