AffySNPCNVPDInfoPkgSeed-class {pdInfoBuilder} | R Documentation |
This class represents Platform Design (PD) packages for Affymetrix genomewide (SNP 5.0 and SNP 6.0) arrays.
Objects can be created by calls of the form new("AffySNPCNVPDInfoPkgSeed", cdfFile, csvAnnoFile, csvSeqFile, csvAnnoFileCnv, csvSeqFileCnv, splineParamFile, crlmmInfoFile, referenceDistFile, ...)
.
cdfFile
:csvAnnoFile
:csvSeqFile
:csvAnnoFileCnv
:csvSeqFileCnv
:splineParamFile
:.predictAccuracy
.crlmmInfoFile
:crlmm
function.referenceDistFile
:snprma
.chipName
:manufacturer
:url
:genomebuild
:organism
:species
:version
:license
:author
:email
:biocViews
:signature(object = "AffySNPCNVPDInfoPkgSeed")
: ... signature(object = "AffySNPCNVPDInfoPkgSeed")
: ... signature(object = "AffySNPCNVPDInfoPkgSeed")
: ... *IMPORTANT* Users are strongly advised to download Affymetrix SNP packages from BioConductor.
The files used for slots splineParamFile
, crlmmInfoFile
,
and referenceDistFile
are generated by the Bioconductor project
for each chip/platform and are hosted in our svn data repository at
https://hedgehog.fhcrc.org/bioc-data/trunk/annotation/parms_store.
When makePdInfoPackage
is run, these files are simply copied to
the inst/extdata
directory of the generated package.
Benilton Carvalho
showClass("AffySNPCNVPDInfoPkgSeed")