genes.rpt.agi {Agi4x44PreProcess} | R Documentation

## Genes interrogated for different probes

### Description

Some Genes are interrogated by different probes at different positions. This function identifies different probes interrogating the same gene. This group of probes is called a GENE SET.

### Usage

    genes.rpt.agi(dd, annotation.package, raw.data, WRITE.html, REPORT)

### Arguments

`dd` | An RGList: raw data or Processed data
`annotation.package` | a character specifying the AGI annotation package: 'hgug4112a.db','mgug4122a.db'
`raw.data` | logical, if `TRUE` it uses RAW data, otherwise it uses PROCESSED data
`WRITE.html` | logical, if `TRUE` it writes an html output
`REPORT` | logical, if `TRUE`it generates an information REPORT

### Value

Generates an 'html' file and a 'txt' file with information about genes that are interrogated for different probes at different chr positions. The 'html' file includes a link to the ENSEMBL data base, exactly to the chr region where the 60 base agilent probe claims to be located. Chr coordinates are taken directly from the agilent files (data files obtained after image scanning and using Agilent Feature Extraction)

### Author(s)

Pedro Lopez-Romero

### Examples

            data(dd)
            library(hgug4112a.db)
            genes.rpt.agi(dd,"hgug4112a.db",raw.data=TRUE,
                    WRITE.html=TRUE,REPORT=TRUE)

[Package Agi4x44PreProcess version 1.2.0 Index]