Commands used to extract the hits to SIX genes from blast_pipe.sh outfiles. These were used to extract the names of contigs that the these hits came from and use these to extract the gene predictions on these conitgs.
Commands for MUMmer to perform alignments of FoC assembled contigs against the lineage specific contigs identified in FoL.
Program to parse MUMmer's .tiling output files to .gff format.