added checks to skip over deleted genomes
Add BAM and BED support
Merge branch 'master' of github.com:LyonsLab/coge
Added check for deleted genomes and skip thosewq
Comment out new transforms still under development
Merge branch 'master' of https://github.com/LyonsLab/coge
Fix undef data_type
Fix undef data_type
Fixed bug in gene order mirroring start and stop position.
Merge branch 'master' of github.com:LyonsLab/coge