Calculate Classification Accuracy

Calculate the classification accuracy at a given phylogenetic level.

Usage

accuracy(actual, predicted, rank)

confusionTable(actual, predicted, rank)

Arguments

actual

data.frame with the actual classification hierarchy.

predicted

data.frame with the predicted classification hierarchy.

rank

rank at which the accuracy should be evaluated.

Value

The accuracy or a confusion table.

Examples

if (FALSE) { # \dontrun{
classifier <- rdp()

seq <- readRNAStringSet(system.file("examples/RNA_example.fasta",
    package = "rRDP"
))

### decode the actual classification
actual <- decode_Greengenes(names(seq))

### use RDP to predict the classification
pred <- predict(classifier, seq)

### calculate accuracy
confusionTable(actual, pred, "genus")
accuracy(actual, pred, "genus")
} # }