Implement statistical tests for comparison of signatures between samples.

[scottrk2]

I'm running into situations in my work where I have two samples (say treatment and control) that seem like they have different trinucleotide signatures, but I want to rigorously show that to be the case. Some old literature suggests that a generalized form of Fischer's exact test may be the best way to proceed. I've attached the relevant literature to see if this is something you'd be interested in potentially implementing. I should point out that these papers, written in the 80's, make use of Monte Carlo approaches to approximating p-values. Given the large number of calculations needed to compute exact p-values, this approach is likely still valid. I also have some functional code, but it will need to be significantly cleaned up and better integrated into the Nucleic API.
agresti_wackerly_boyett.pdf
Adams&Skopek.pdf