| YAQCStats-class {yaqcaffy} | R Documentation |
Holds Quality Control data for a set of Affymetrix arrays
Objects can be created by calls of the form yaqc(object) where object
is of class AffyBatch of ExpressionSet.
YAQCStats is a subclass of QCStats and uses the scale.factor,
average.background and percent.present, arraytype
and target attributes of it's subclass.
log:"logical" that specifies if expression values are in log2 formaverage.noise:"numeric" The average noise for the arrays morespikes:"matrix" More spiked in probes (e.g. r2biob5, r2biob3,...) gcos.probes:"matrix" GAPDH and β-actin qc probes
(e.g. gapdh 3,5,M,...) containing the GCOS valuesbio.calls:"matrix" BioB 5',3',M and BioC, BioC 5',3'
present/absent/marginal calls signature(object = "YAQCStats"): are intensities in log2 formsignature(object = "YAQCStats"): average noisesignature(object = "YAQCStats"): more spike-in probes signature(object = "YAQCStats"): GCOS values of gapdh and actin QC probes signature(object = "YAQCStats"): P/M/A calls for BioB, BioC and BioD spikes signature(object = "YAQCStats"): shows the array names composing the YAQCStats object signature(object = "YAQCStats"): visual representation of the qc metrics signature(object = "YAQCStats"): data frame summary of the outliers signature(object = "YAQCStats"): displays the content of the object as a data frame signature(object = "YAQCStats"): merges two compatible YAQCStats objects, i.e. that have the same values for the log, target and arraytype slots. signature(object = "YAQCStats"): show the array names of an YAQCStats objects. Laurent Gatto
QCStats-class