agilentDB: aCGH Agilent Probes GC Fraction

In fredcommo/rCGH: Comprehensive Pipeline for Analyzing and Visualizing Array-Based CGH Data

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.

fredcommo/rCGH documentation built on May 16, 2019, 2:41 p.m.