Different p-values are produced for each gene using randomization distribution.

omicf(x, y, test = proportion.p, orness = NULL, norness = 10,
  nsim = 100, method = "dbinom", type = "complete",
  is.decreasing = FALSE)

Arguments

x

Count matrix

y

Vector giving the pairs of columns and the treatment (first and second column)

test

Function comparing counts within each pair

orness

Vector of the ornesses

norness

Number of values for orness if orness == NULL

nsim

Number of simulations

method

Method to generate the orness values c("dbinom","fuller"). See owa.weights.

type

Randomization distribution to generate random pairs

is.decreasing

The values to be aggregated in decreasing order