Construction of genome annotation tutorial adapted for Drosophila or Cactoblastis species. I will be updating this file in the following weeks. You can find the original version at https://gist.github.com/darencard/bb1001ac1532dd4225b030cf0cd61ce2
MAKER is a great tool for annotating a reference genome using empirical and ab initio gene predictions. GMOD, the umbrella organization that includes MAKER, has some nice tutorials online for running MAKER. However, these were quite simplified examples and it took a bit of effort to wrap my head completely around everything. Here I will describe a de novo genome annotation for Boa constrictor in detail, so that there is a record and that it is easy to use this as a guide to annotate any genome.
- RepeatModeler and [RepeatMasker](http://www.repea