[maker-devel] Maker is not predicting any genes on scaffold

[Daniel Ence]

Hi Kerry, What evidence and abinitios did you use when you ran MAKER on your own machine?

Thanks,
Daniel

Daniel Ence
Graduate Student
Eccles Institute of Human Genetics
University of Utah
15 North 2030 East, Room 2100
Salt Lake City, UT 84112-5330
________________________________
From: maker-devel [maker-devel-bounces at yandell-lab.org] on behalf of Gendreau, Kerry L [Kerry_Gendreau at student.uml.edu]
Sent: Friday, November 08, 2013 4:40 PM
To: maker-devel at yandell-lab.org
Subject: [maker-devel] Maker is not predicting any genes on scaffold

Hello,

I am attempting to annotate a small section of an arthropod genome. I ran Maker on the command line and the results showed only repetitive regions recognized by Repeat Masker -- no predicted ORFs. I submitted my scaffold through the web interface and got the same results.

I know that there are genes present on this scaffold and when I run it through Augustus there are 13 ORFs predicted.

Are there some options that I need to adjust to get ab initio gene predictions from Maker?


Thank you,

Kerry Gendreau
Graduate Student, Dept. of Biological Sciences
University of Massachusetts Lowell
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