[maker-devel] Handling of strandedness of est_gff

[Mikael Brandström Durling]

Hi,

while looking into the annotations created by maker I find that there are cases where the ab initio prediction sits on one strand of the reference, while the est_gff evidence from cufflinks sits on the other strand. In this case the aed is rather low, and the predictions seems quite off. Is maker taking the strand information of the est_gff into account? If so, is it possible to tell maker that the ests are unstranded and only use the structural information rather than structure and strand?

Thanks for any advice,
Mikael