[maker-devel] est2genome=1 for est and altest

[Marc Höppner]

Hi,

I may be wrong about this, but it seems to me that Maker will never build a gene model from EST evidence, if the set data is provided as ‘altest' rather than ‘est'. In my case, I am annotating a plant for which there is a closely related reference genome + annotation, as well as pretty good EST data. So I supplied the EST data as ‘altest', assuming that the only difference would be that the alignment parameters would be slightly more relaxed. But I found that Maker never made any genome models from that data. When moving the EST data to ‘est’, it worked.

So I am not sure whether this is an intended behaviour, but in my case it caught me a bit by surprise…

Regards,

Marc