[maker-devel] Evidences in fasta format but be alignment in every run?

[Quanwei Zhang]

Hello:

I am annotating a new genome using Maker. I have RNA-seq assembly and
protein sequences (from other organisms) in fasta format. Since I need to
train gene finders, so I have to run Maker several times. I think the
aligning process between the transcript assembly (protein sequences) and
the genome assembly may be time consuming. So I wonder whether I can save
such alignment in the first run, and then make use of such alignment in the
following runs?

Thanks

Best
Quanwei
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