Background Adjustment Using Sequence Information

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Documentation for package ‘gcrma’ version 2.70.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

affinity.spline.coefs	Spline coefficients for estimation of affinity from probe sequence
average.for.PAV	Estimation of non-specific Binding Background Parameters
base.profiles	Probe Affinity computation
base.profiles.mm	Probe Affinity computation
base.profiles.nc	Probe Affinity computation
bg.adjust.affinities	Background adjustment with sequence information (internal function)
bg.adjust.constant	Background adjustment with sequence information (internal function)
bg.adjust.fullmodel	Background adjustment with sequence information (internal function)
bg.adjust.gcrma	GCRMA background adjust (internal function)
bg.adjust.mm	Background adjustment with sequence information (internal function)
bg.adjust.optical	Background adjustment with sequence information (internal function)
bg.parameters.ns	Estimation of non-specific Binding Background Parameters
check.probes	Probe Affinity computation
compute.affinities	Probe Affinity computation
compute.affinities.local	Probe Affinity computation
compute.affinities2	Probe Affinity computation
compute.affinity.coef	Probe Affinity computation
gcrma	Robust Multi-Array expression measure using sequence information
gcrma.bg.transformation	Robust Multi-Array expression measure using sequence information
gcrma.bg.transformation.fast	Robust Multi-Array expression measure using sequence information
gcrma.engine	GCRMA background adjust engine(internal function)
gcrma.engine2	GCRMA background adjust engine(internal function)
GSB.adj	Robust Multi-Array expression measure using sequence information
just.gcrma	Compute GCRMA Directly from CEL Files
justGCRMA	Compute GCRMA Directly from CEL Files
left.sigma	Estimation of non-specific Binding Background Parameters
PAV	Estimation of non-specific Binding Background Parameters
plotBaseProfiles	Probe Affinity computation