Hi everyone !
I am using the tool maker to annotate my genome. The problem is that this tool is not using several cores to do the task.
So I was wondering, what about splitting my genome assembly contigs into several five (let's said 32, my number of CPU). For example, if I have 64 contigs, the 2 first one goes on one file, the 2 second ones goes on second file, and it goes on. If I launch maker, with the same amount of evidences for each file, will that be suitable ? Or does maker kind of use all the file at once to create gene models ?
The first step of maker, on my whole assembly, last something like 12 days (I have a lot of proteins evidences). I want to speed up that time by spliting the file into several part, where maker will work on in the same time. Does that seem acceptable ? Anyone already tried that ?