Fisher test - two sided hypothesis

[JBinkowski]

Hi,
Many thanks for this extremely useful package.
I have two questions about Fisher's test and output data frame.

• Firstly, I would like to ask if is it possible to implement two sided alternative in runLOLA() function (as shown below)?

  if (direction == "depletion") {
  fisherAlternative = "less"
  } 
  else if (direction == "two.sided") {
      fisherAlternative = "two.sided"
      cat("Running fisher test with alternative=two.sided")
  }
  else {
  fisherAlternative = "greater"
  }
  

  This topic was already mentioned here https://github.com/nsheff/LOLA/issues/20, however this feature is still not available.

• Another question is about the presence of raw p-value within the output data frame, this kind of information may be useful for example to use custom correction for multiple comparisons problem.

Thanks in advance.