postProbs-class {cosmo} | R Documentation

## Class "postProbs"

### Description

An object of class `"postProbs"` collects information about the posterior probability of motif occurrences in each of the eligible positions of the input sequences. Most notably these probabilities can be plotted using the plot function.

### Objects from the Class

Objects can be created by calls of the form `new("postProbs", ...)`.

### Slots

`seqMat`:
  Object of class `"matrix"` The sequences in numerical matrix format as output by cosmo.
`seqNames`:
  `"list"`A list of the sequence names.
`probs`:
  `"numeric"`A matrix of the posterior probabilities.
`revcomp`:
  `"logical"`A matrix indicating whether the motif is more likely to occure in the reverse complement orientation.

### Methods

plot
  `signature(x = "postProbs")` Plots the posterior probabilities. If the motif is more likely to occur in the forward strand orientation, the bar extends upward from the horizontal, otherwise it extends downward.

### Author(s)

Oliver Bembom, bembom@berkeley.edu

[Package cosmo version 1.8.0 Index]