p_values_for_motif: Compute p-values for a single motif.
In chandlerzuo/atIndel: Affinity test for identifying regularity Indels

p_values_for_motif

R Documentation

Compute p-values for a single motif.

Description

Compute p-values for a single motif.

Usage

p_values_for_motif(
  motif.id,
  par.prior,
  par.transition,
  par.motif.lib,
  par.motif.scores,
  par.testing.mc,
  par.loglik.type,
  par.figdir
)

Arguments

`motif.id`	The integer index.
`par.prior`	Prior allele distribution.
`par.transition`	Transition matrix for the allele sequence.
`par.motif.lib`	The motif library.
`par.motif.scores`	Scores in the format of the "motif.scores" field returned by `ComputeMotifScores`.
`par.testing.mc`	See testing.mc in `ComputePValues`.
`par.loglik.type`	A string for the log-lik type, "max", "mean" or "median".
`par.figdir`	A string for the path to output figures.