Optimized local intensity-dependent normalisation of two-color microarrays


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Documentation for package `OLIN' version 1.3.2

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anovaint One-factorial ANOVA assessing intensity-dependent bias
anovapin One-factorial ANOVA assessing pin-dependent bias
anovaplate One-factorial ANOVA assessing pin-dependent bias
anovaspatial One-factorial ANOVA assessing spatial bias
bas Between-array scaling
colorbar.mxy Generates a colour bar
colorbar.mxy.abs Generates a colour bar
colorbar.sig Generates a colour bar for spatial significance plots
fdr.int Assessment of the significance of intensity-dependent bias
fdr.spatial Assessment of the significance of spatial bias
fgbg.visu Visualisation of foreground and background fluorescence spot intensities in both channels
m2v Converts matrix to vector based on spot layout
ma.matrix Calculation of moving average for a matrix
ma.vector Calculation of moving average for a vector
mxy.abs.plot Generation of MXY plots of absolute values
mxy.plot Generation of MXY plots
mxy2.plot Generation of MXY plots based on spot coordinates
olin Optimised local intensity-dependent normalisation of two-colour microarrays
p.int Calculates significance of intensity-dependent bias
p.spatial Assessment of the significance of spatial bias based on p-values
sigint.plot Visualisation of significance of intensity-dependent bias
sigxy.plot Visualisation of significance tests for spatial bias
sw cDNA microarray data of SW480/SW620 experiment
sw.olin Normalised cDNA microarray data of SW480/SW620 experiment
sw.xy Spatial coordinates of spot locations of SW480/SW620 experiment
v2m Converts vector to matrix based on spot layout