Basic functional association parsing and processing
p-values for association groups
simple promoter region search
commit of previous ka_ks code
ka/ks calculuations for gene groups
pseudocount change
hypergeometric p-value tests for association groups
bonferroni
cleanup, binomial tests, refactor to eliminate redudant code for tests
Merge branch 'pathways' into kaks
More cleanup and stats output
warn if imports fail
updated dependency docs
added installer with dependency handling
consolidated gene and group scoring
deleted redundant pathways code
Merge branch 'tmp' into release
made GeneCrossSection work as a dictionary
added trivial score tests
moved simple filter functions into mkpileup.py where they are used