agilentDB {rCGH} | R Documentation

## aCGH Agilent Probes GC Fraction

### Description

A dataset containing the Agilent probe Ids, and their GC content.
These data allow `rCGH` to support Agilent aCGH arrays, from 44K to 400K. See the `source` section.
This information is used to correct the GC% bias. For Agilent data only.

### Usage

    agilentDB

### Format

A data frame with 411056 rows and 2 columns:

- ProbeID: Official Agilent probe ids.

- GC: The GC content in each probe sequence, expressed as the GC fraction.

### Value

A dataset

### Note

Probe sequences are not used and have been removed after computing the GC fractions as GC = sum(G or C)/length(sequence), for each sequence in file.

### Author(s)

Frederic Commo

### Source

These data derive from the official Agilent Sequence List, SurePrint_G3_Human_CGH_Microarray 2x400K_021850_D_SequenceList_20111015.txt, freely available at: Agilent SureDesign
Access date: 3-2-2015
Notice that a User ID and Password are required to sign in.

[Package rCGH version 1.8.1 Index]