cisRun-class {GGtools} | R Documentation

## Class `"cisRun"`

### Description

manage results of All.cis eQTL analysis

### Objects from the Class

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

### Slots

`seqnames`:

  Object of class `"Rle"` ~~

`ranges`:

  Object of class `"IRanges"` – will document the range searched for each probe/gene – therefore the values returned are addresses of gene extent minus/plus radius at each end

`strand`:

  Object of class `"Rle"` ~~

`elementMetadata`:

  Object of class `"DataFrame"` ~~

`seqinfo`:

  Object of class `"Seqinfo"` ~~

`metadata`:

  Object of class `"list"` ~~

### Extends

Class `"GRanges"`, directly. Class `"GenomicRanges"`, by class "GRanges", distance 2. Class `"Vector"`, by class "GRanges", distance 3. Class `"GenomicRanges_OR_missing"`, by class "GRanges", distance 3. Class `"GenomicRanges_OR_GRangesList"`, by class "GRanges", distance 3. Class `"Annotated"`, by class "GRanges", distance 4.

### Methods

No methods defined with class "cisRun" in the signature.

### Note

intent is to simplify output of cis eQTL testing in a GRanges instance

### Author(s)

VJ Carey <stvjc@channing.harvard.edu>

### Examples

    showClass("cisRun")

[Package GGtools version 5.18.0 Index]