agilentDB: aCGH Agilent Probes GC Fraction
In rCGH: Comprehensive Pipeline for Analyzing and Visualizing Array-Based CGH Data
Description
Usage
Format
Value
Note
Author(s)
Source
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
1
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.
rCGH documentation built on Nov. 8, 2020, 8:30 p.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Description Usage Format Value Note Author(s) Source
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
1 |
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.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.