GenomeWideSNP_5 {SNPMaP.cdm} | R Documentation |
A SNPMaP
cdm
for the Affymetrix GenomeWideSNP_5
genotyping microarray.
GenomeWideSNP_5
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" ...
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.