Man pages for SiYangming/pRRophetic
Predict clinical chemotherapeutic response from before-treatment tumor gene expression levels.
| calcPhenotype | Calculates phenotype from microarray data. |
| classifySamples | Dichotimize a training expression set and fit a logistic... |
| doVariableSelection | a function to do variable selection on expression matrices. |
| estimateCI.pRRopheticCv | Confidence intervals from "pRRopheticCv" object. |
| estimateMeanPredictionError.pRRopheticCv | Mean prediction error from "pRRopheticCv" object. |
| estimateMedianPredictionError.pRRopheticCv | Median prediction error from "pRRopheticCv" object. |
| estimateRsqr.pRRopheticCv | R^2 from "pRRopheticCv" object. |
| getCGPinfo | Given a drug and tissue type, return CGP expression and drug... |
| getPPV | Calculate PPV and NPV and a cutpoint from the training data. |
| homogenizeData | Take two expression matrices and return homogenized versions... |
| plot.pRRopheticCv | Plot "pRRopheticCv" object. |
| predictionAccuracyByCv | Cross validation on training dataset |
| pRRopheticCV | This function uses X fold cross validation on the TrainingSet... |
| pRRopheticLogisticPredict | Predict from the CGP data using a logistic model |
| pRRopheticPredict | Given a gene expression matrix, predict drug senstivity for a... |
| pRRopheticQQplot | Check the distribution of the drug response (IC50) data using... |
| summarizeGenesByMean | Take an expression matrix and if duplicate genes are... |
| summary.pRRopheticCv | Summary of "pRRopheticCv" object. |
