Needed to generate a generate a species-specific repeat library for use with MAKER genome annotation using RepeatModeler and the Pgenerosa_v070.fa (see our Genomic Resources wiki for more info) version of the genome.

This was run in a Jupyter Notebook on Emu (Apple Xserve running Ubuntu 16.04LTS).

Jupyter Notebook (GitHub):

• 20181219_emu_geoduck_repeatmodeler.ipynb

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RESULTS

This took ~34hrs to complete, but now I have a geoduck repeat library to use with MAKER!

Output folder:

• 20181219_Pgenerosa_repeatmodeler/

RepeatModeler FastA (1.4MB):

• 20181219_Pgenerosa_repeatmodeler/Pgenerosa_v070-families.fa