How do I specify the draft sequence genefinder?
Use the –draftgap option. In most cases, this will be –draftgap 100. This tells GrailEXP never to build across gaps of size 100 unless there is EST/mRNA evidence allowing it to do so. For phase 1 draft data, this option should be used. For phase 2 draft or finished data, the draftgap option should not be used.