pics-class {PICS} | R Documentation

## PICS class

### Description

This object is used to gather all parameters from fitting PICS to a single candidate region.

### Usage

    ## S4 method for signature 'pics'
    show(object)

    ## S4 method for signature 'pics'
    minRange(x)

    ## S4 method for signature 'pics'
    maxRange(x)

    ## S4 method for signature 'pics'
    score(x)

    ## S4 method for signature 'pics'
    scoreReverse(x)

    ## S4 method for signature 'pics'
    scoreForward(x)

    ## S4 method for signature 'pics'
    chromosome(x)

    ## S4 method for signature 'pics'
    se(x)

    ## S4 method for signature 'pics'
    seF(x)

    ## S4 method for signature 'pics'
    seR(x)

    ## S4 method for signature 'pics'
    sigmaSqF(x)

    ## S4 method for signature 'pics'
    sigmaSqR(x)

    ## S4 method for signature 'pics'
    delta(x)

    ## S4 method for signature 'pics'
    mu(x)

    ## S4 method for signature 'pics'
    w(x)

    ## S4 method for signature 'pics'
    K(x)

    ## S4 method for signature 'pics'
    code(x)

    ## S4 method for signature 'pics'
    summary(object)

### Arguments

`object, x` | A `pics` object.

### Functions

- `show,pics-method`: show method

- `minRange,pics-method`: Get start of range

- `maxRange,pics-method`: Get end of range

- `score,pics-method`: Score accessor.

- `scoreReverse,pics-method`: Reverse score accessor.

- `scoreForward,pics-method`: Forward score accessor.

- `chromosome,pics-method`: Chromosome accessor

- `se,pics-method`: se accessor

- `seF,pics-method`: Forward se accessor

- `seR,pics-method`: Reverse se accessor

- `sigmaSqF,pics-method`: sigmaSqF accessor

- `sigmaSqR,pics-method`: sigmaSqR accessor

- `delta,pics-method`: delta accessor

- `mu,pics-method`: mu accessor

- `w,pics-method`: w accessor

- `K,pics-method`: K accessor

- `code,pics-method`: Error code accessor

- `summary,pics-method`: Summary of the object

### Slots

`estimates`

  A list containing all parameters estimates as well as standard errors.

`Nmerged`

  The number of binding events that were merged; binding events that overlap are merged.

`converge`

  A `logical` value indicating whether the EM algorithm has converged.

`chr`

  The candidate region's chromosome.

`score`

  Score of the binding event

`scoreF`

  Forward score of the binding event.

`scoreR`

  Reverse score of the binding event.

`range`

  Genomic ranges.

[Package PICS version 2.38.0 Index]