computeRawQ {sscore} | R Documentation |
Computes the RawQ value of a single Affymetrix GeneChip
computeRawQ(fname, intensity, probe.index, probe.zoneID, bgCells, NumberZones, celfile.path = NULL)
fname |
character string with the filename of the GeneChip |
intensity |
vector of intensities for the GeneChip |
probe.index |
vector of indices for each probe |
probe.zoneID |
vector of zone ID numbers for each probe |
bgCells |
number of background cells for the GeneChip |
NumberZones |
number of zones on the GeneChip |
celfile.path |
character denoting the path for the *.CEL files specified in fname |
Calculates RawQ using the algorithms described in the Affymetrix Statistical Algorithms Description Document for a single GeneChip. This is an internal function that will generally not be accessed directly.
the RawQ value for the given array
Based on Affymetrix MAS5 Statistical SDK source code http://www.affymetrix.com/Auth/support/developer/stat_sdk/STAT_SDK_source.zip, as well as C++ code by Li Zhang and Delphi code by Robnet Kerns
Richard Kennedy rkennedy@vcu.edu
Affymetrix (2002) Statistical Algorithms Description Document, Affymetrix Inc., Santa Clara, CA, whitepaper. http://www.affymetrix.com/support/technical/whitepapers/sadd_whitepaper.pdf