Methods for Spike-in Arrays

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Documentation for package ‘spkTools’ version 1.36.0

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spkTools-package Tools for Spike-in Data Analysis and Visualization
affy SpikeInExpressionSet of Affymetrix Spike-in Experiment Data
class:SpikeInExpressionSet Class to Contain and Describe High-Throughput Expression Level Assays with Spike-in Data
initialize-method Class to Contain and Describe High-Throughput Expression Level Assays with Spike-in Data
plotSpkBox Boxplots of Fold Changes Calculated by spkBox
spikeIn Class to Contain and Describe High-Throughput Expression Level Assays with Spike-in Data
spikeIn-method Class to Contain and Describe High-Throughput Expression Level Assays with Spike-in Data
spikeIn<--method Class to Contain and Describe High-Throughput Expression Level Assays with Spike-in Data
SpikeInExpressionSet Class to Contain and Describe High-Throughput Expression Level Assays with Spike-in Data
SpikeInExpressionSet-class Class to Contain and Describe High-Throughput Expression Level Assays with Spike-in Data
SpikeInExpressionSet-methods Class to Contain and Describe High-Throughput Expression Level Assays with Spike-in Data
spkAccSD Accuracy Standard Deviation
spkAll Spike-in Functions Wrapper
spkAnova Anova Model for Microarray Spike-in Data
spkBal Quantify Microarry Spike-in Design Imbalance
spkBox Fold Change Calculations
spkDensity Spike-in Density Plot
spkGNN Genes Needed to Detect N True Positives
spkMA MA Plots
spkPair Pairwise Comparisons for Spike-in Genes
spkPairNS Pairwise Comparisons for Non-Spike-in Genes
spkPot Probability of being in the Top
spkQuantile Empirical Quantiles
spkSlope Signal Detect Slope Plot
spkSplit Class to Contain and Describe High-Throughput Expression Level Assays with Spike-in Data
spkSplit-method Class to Contain and Describe High-Throughput Expression Level Assays with Spike-in Data
spkTools Tools for Spike-in Data Analysis and Visualization
spkVar Spike-in Variance
summarySpkBox Summary of Fold Changes Calculated by spkBox