Man pages for IMB-Computational-Genomics-Lab/scPred
scPred - Single cell prediction using singular value decomposition and machine learning classification
| crossTab | Gets contingency table |
| crossTab-scPred-method | Gets contingency table |
| eigenDecompose | Eigendecompose gene expression matrix |
| getAccuracy | Get accuracy |
| getAccuracy-scPred-method | Get accuracy |
| getFeatureSpace | Get informative principal components |
| getLoadings | Get loadings matrix |
| getLoadings-scPred-method | Get loadings matrix |
| getPCA | Get principal components |
| getPCA-scPred-method | Get principal components |
| getPredictions | Get predictions |
| getPredictions-scPred-method | Get training probabilities |
| getTrainPred | Get training predictions |
| getTrainResults | Get training probabilities |
| getTrainResults-scPred-method | Get training probabilities |
| metadata | Get metadata |
| metadata-set | Set metadata |
| plotEigen | Plot PCA |
| plotEigen-scPred-method | Plot PCA |
| plotExp | Plot gene expression data |
| plotExp-scPred-method | Plot gene expression data |
| plotLoadings | Plot loadings |
| plotLoadings-scPred-method | Plot loadings |
| plotPredProbs | Plot prediction probabilities |
| plotPredProbs-scPred-method | Plot prediction probabilities |
| plotTrainProbs | Plot training probabilities for all models |
| processPreds | Prepare and tidy prediction results |
| projectNewData | Project new data onto training principal components |
| scPred | Definition of 'scPred' class |
| scPredict | Predict cell classes from a new dataset using a trained model |
| show-scPred-method | show |
| trainModel | Train a prediction model |
