Sam’s Notebook: Transposable Element Mapping – Crassostrea gigas Genome v9 Using RepeatMasker 4.07 on Roadrunner

Per this GitHub issue, I’m IDing transposable elements (TEs) in the Crassostrea gigas genome. Even though the C.gigas genome should be fully annotated, Steven wants a comparable set of analyses to compare to the Crassostrea virginica TE mapping we previously performed.

I used the Crassostrea gigas genome we have linked on our GitHub Genomic Resources wiki:

• Crassostrea_gigas.oyster_v9.dna_sm.toplevel.fa

Analysis was performed in the following Jupyter Notebok (GitHub):

• 20190327_roadrunner_cgig_TEs_repeatmasker.ipynb