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calcConfusionCv()
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Calculate confusion matrix for cross-validation. |
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calcConfusionValidation()
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Calculate confusion matrices (or matrix) for validation datasets. |
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downloadCustomCdfMappings()
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Download custom CDF mapping files from Brainarray. |
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extractExpressionData()
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Extract the expression matrices containing the desired samples. |
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getStudyData()
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Get the gene expression data for one study. |
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getStudyDataList()
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Get the gene expression data for multiple studies. |
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getSupportedPlatforms()
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Get the GPLs for microarray platforms that are currently supported. |
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getUnsupportedPlatforms()
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Get the GPLs for unsupported microarray platforms. |
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installCustomCdfPackages()
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Install custom CDF packages from Brainarray. |
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makeCoefDt()
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Make data.table of non-zero coefficients from a glmnet model. |
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makeGlmnetArgs()
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Make arguments for glmnet. |
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mergeMatchStudyData()
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Merge gene expression from different platforms that was measured on the same biological samples. |
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mergeStudyData()
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Merge gene expression data from multiple studies. |
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metapredict()
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Predict the response variable in validation datasets. |
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metapredictCv()
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Perform cross-validation of merged gene expression data. |
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plotClassProbsCv()
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Plot class probabilities for samples from cross-validation. |
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plotClassProbsValidation()
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Plot class probabilities for samples from multiple validation datasets. |
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plotCoefficients()
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Plot coefficients for a gene expression meta-analysis. |
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plotExpressionHeatmap()
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Plot heatmap of merged gene expression data. |