# Structured Analysis of Microarray Data

## Documentation for package ‘stam’ version 1.8.0

## User Guides and Package Vignettes

Read overview or browse directory.

## Help Pages

G I P S W

## -- G --

getGOchildren,character-method | Nodes in a Classifier Net by StAM
getGOchildren,stamNode-method | Nodes in a Classifier Net by StAM
getGOparents,character-method | Nodes in a Classifier Net by StAM
getGOparents,stamNode-method | Nodes in a Classifier Net by StAM
getGOterm,character-method | Nodes in a Classifier Net by StAM
getGOterm,stamNode-method | Nodes in a Classifier Net by StAM
golubTrain.cv | Examplar StAM Cross-Validation Results
golubTrain.fit | Examplar StAM Model Fit

## -- I --

image.stamPrediction | Molecular Symptoms Image on StAM Prediction
initialize,stamCV-method | Cross Validation Information Generated by StAM
initialize,stamEval-method | Results of a Complete StAM Analysis
initialize,stamFit-method | Model Fit Generated by StAM
initialize,stamINode-method | Inner Nodes in Classifier Nets by StAM
initialize,stamLeaf-method | Leaf Nodes in Classifier Nets by StAM
initialize,stamNet-method | Classifier Net for StAM
initialize,stamNode-method | Nodes in a Classifier Net by StAM
initialize,stamPrediction-method | Results of Predictions by StAM

## -- P --

plot.stamCV | Plots for StAM Cross Validation
plot.stamFit | Plots for StAM Model Fit
plot.stamPrediction | Scatter Plot on Node Results
print,stamCV-method | Cross Validation Information Generated by StAM
print,stamFit-method | Model Fit Generated by StAM
print,stamINode-method | Inner Nodes in Classifier Nets by StAM
print,stamLeaf-method | Leaf Nodes in Classifier Nets by StAM
print,stamNet-method | Classifier Net for StAM
print,stamNode-method | Nodes in a Classifier Net by StAM
print,stamPrediction-method | Results of Predictions by StAM

## -- S --

stam.cv | Cross Validated Training for StAM
stam.evaluate | StAM Evaluation Procedure
stam.fit | Fit StAM Model to Training Data
stam.graph.plot | Draw StAM Model Fit Graph
stam.net | Generate a Classifier Graph for StAM
stam.predict | Predict Classifications of New Data
stam.serve | StAM server launch and installation
stam.writeHTML | Write StAM Output in HTML
stamCV-class | Cross Validation Information Generated by StAM
stamEval-class | Results of a Complete StAM Analysis
stamFit-class | Model Fit Generated by StAM
stamINode-class | Inner Nodes in Classifier Nets by StAM
stamLeaf-class | Leaf Nodes in Classifier Nets by StAM
stamNet-class | Classifier Net for StAM
stamNode-class | Nodes in a Classifier Net by StAM
stamPrediction-class | Results of Predictions by StAM

## -- W --

writeHTML,stamCV-method | Cross Validation Information Generated by StAM
writeHTML,stamEval-method | Results of a Complete StAM Analysis
writeHTML,stamFit-method | Model Fit Generated by StAM
writeHTML,stamINode-method | Inner Nodes in Classifier Nets by StAM
writeHTML,stamLeaf-method | Leaf Nodes in Classifier Nets by StAM
writeHTML,stamNet-method | Classifier Net for StAM
writeHTML,stamNode-method | Nodes in a Classifier Net by StAM
writeHTML,stamPrediction-method | Results of Predictions by StAM