Open gpertea opened 1 year ago
-r
), implement ref locus boundary check / gene fusion-prevention option - to prevent the resulting assemblies from fusion-bridging multiple reference loci during the iterative extension-assembly process (unless the reference loci already overlap, e.g. PCDH genes)
A new option (e.g.
--assemble
) should allow gffcompare to extend the transfrag-merging ability in the resultingcombined.gtf
output. Intron-compatible transfrags could be merged based on at least n>=1 matching introns, where the user can control the n value.This is meant to be a more conservative alternative to
stringtie --merge
.