ral
genomics on non-model organisms it is more likely than not that
there is no precompiled data base
for your organism. (For example, there isn’t a precompiled data base for a single
member of the genus <em>Oncorhynchus</em> at this time.
Rather, if you work on non-model organisms, you will typically
have to create your own data base from an existing
GFF or GTF file. SnpEff allows you to do this, and that will be the first step that
we do here.</p>
<p>Since SnpEff is written in Java, it is pretty easy to