gwSnpScreenResult-class {GGBase} | R Documentation

## Class "gwSnpScreenResult" – container for GGtools gwSnpScreen method outputs and allied objects

### Description

Class "gwSnpScreenResult" – container for GGtools gwSnpScreen method outputs and allied objects

### Objects from the Class

Objects can be created by calls of the form `new("gwSnpScreenResult", ...)`. These will be primarily lists of inference tables (snps are rows, columns are statistics and p-values). Additional slots manage analysis metadata.

gwSnpScreenResult is intended for genome-wide analysis of expression for a single gene.

cwSnpScreenResult is intended for the restriction to a single chromosome.

multiGwSnpScreenResult is intended for analyses with multiple genes.

### Slots

`.Data`:
  Object of class `"list"` containing inference tables (snps are rows, columns are statistics and p-values)
`gene`:
  Object of class `"character"` typically the HUGO symbol of the gene analyzed
`psid`:
  Object of class `"character"` the feature identifier of the associated microarray
`annotation`:
  Object of class `"character"` vector of relevant annotation package identifier names
`snpLocPackage`:
  Object of class `"character"` name of package holding the netCDF store of SNP locations
`snpLocExtRef`:
  Object of class `"character"` name of object in snpLocPackage pointing to the external store (SQLite)
`activeSnpInds`:
  Object of class `"numeric"` vector telling which SNPs (relative to the referenced netCDF locations store) were used

### Extends

Class `"list"`, from data part. Class `"vector"`, by class "list", distance 2. Class `"AssayData"`, by class "list", distance 2.

### Methods

No methods defined with class "gwSnpScreenResult" in the signature in class GGBase. See GGtools gwSnpScreen documentation.

### Author(s)

VJ Carey <stvjc@channing.harvard.edu>

### Examples

    showClass("gwSnpScreenResult")
    showClass("cwSnpScreenResult")

[Package GGBase version 2.0.4 Index]