compPvalue: P-values computation.
In guigolab/sQTLseekeR2: R package for splicing QTL mapping

Description Usage Arguments Value Author(s)

Compute P-values from F scores using the methods available in the vegan package. Method adonis is used for sQTL testing and method betadisper for svQTLs.

compPvalue(
  res.df,
  tre.mt,
  min.nb.ext.scores = 1000,
  nb.perm.max = 1e+06,
  svQTL = FALSE
)

`res.df`	a data.frame with the F scores and number of groups.
`tre.mt`	a matrix with the transcript relative expression (samples x transcripts).
`min.nb.ext.scores`	the minimum number of permuted scores higher than 'F.lead' to allow the computation to stop. Default is 1000.
`nb.perm.max`	the maximum number of permutations. Default is 1e6.
`svQTL`	should svQTL test be performed instead of sQTL. Default is `FALSE`.