GenomeWideSNP_5 {SNPMaP.cdm}R Documentation

cdm for the GenomeWideSNP_5 microarray

Description

A SNPMaP cdm for the Affymetrix GenomeWideSNP_5 genotyping microarray.

Usage

GenomeWideSNP_5

Format

The format is:
List of 1
$ four.probes:List of 1
..$ perfect: int [1:440794, 1:8] 3594244 3674393 3884091 4063474 3431205 4588391 2636192 4345647 3459144 2686249 ...
.. ..- attr(*, "dimnames")=List of 2
.. .. ..$ : chr [1:440794] "SNP_A-1780520" "SNP_A-1780618" "SNP_A-1780632" "SNP_A-1780654" ...
.. .. ..$ : chr [1:8] "pma1" "pma2" "pma3" "pma4" ...

Details

The cdm is used to identify the probesets in the 'raw' SNPMaP object derived from the microarray CELs, achieving a similar function to an Affymetrix CDF file, but faster because it is held in memory once loaded. The GenomeWideSNP_5 cdm has has one set comprising 440794 probesets with four quartets.


[Package SNPMaP.cdm version 1.0.0 Index]