Nothing
## ---- echo = FALSE, message = FALSE, warning = FALSE--------------------------
library(EmpiricalCalibration)
## -----------------------------------------------------------------------------
data(sccs)
drugOfInterest <- sccs[sccs$groundTruth == 1, ]
drugOfInterest
exp(drugOfInterest$logRr)
computeTraditionalP(drugOfInterest$logRr, drugOfInterest$seLogRr)
## -----------------------------------------------------------------------------
data(sccs)
negatives <- sccs[sccs$groundTruth == 0, ]
head(negatives)
## -----------------------------------------------------------------------------
plotForest(negatives$logRr, negatives$seLogRr, negatives$drugName)
## -----------------------------------------------------------------------------
null <- fitNull(negatives$logRr, negatives$seLogRr)
null
## -----------------------------------------------------------------------------
plotCalibration(negatives$logRr,negatives$seLogRr)
## -----------------------------------------------------------------------------
plotCalibrationEffect(negatives$logRr,negatives$seLogRr, null = null)
## -----------------------------------------------------------------------------
p <- calibrateP(null, drugOfInterest$logRr, drugOfInterest$seLogRr)
p
## -----------------------------------------------------------------------------
plotCalibrationEffect(negatives$logRr,
negatives$seLogRr,
drugOfInterest$logRr,
drugOfInterest$seLogRr,
null)
## -----------------------------------------------------------------------------
null <- fitMcmcNull(negatives$logRr, negatives$seLogRr)
null
## -----------------------------------------------------------------------------
plotMcmcTrace(null)
## -----------------------------------------------------------------------------
p <- calibrateP(null, drugOfInterest$logRr, drugOfInterest$seLogRr)
p
## -----------------------------------------------------------------------------
plotCalibrationEffect(negatives$logRr,
negatives$seLogRr,
drugOfInterest$logRr,
drugOfInterest$seLogRr,
null,
showCis = TRUE)
## ----evale=TRUE---------------------------------------------------------------
citation("EmpiricalCalibration")
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