You will need to provide much more context to your question in order to get a useful answer. How is anybody supposed to know what a "database in binary format and snps" means? As for the business of applying a fisher's exact test, it's just fisher.test

You'll need to know how to program in R a little bit, understand what statistical test/methods you want to apply, and how to implement those in R.  This could be straightforward, but I think you might be more effective if you can find a local expert to give you a hand with getting started.

Sorry, still not following you. Perhaps it would be helpful to paste in here the first 10-20 lines of the text file you are talking about and reframe the question by specifying specific rows and columns of the file that we can see.