accuracy {rRDP} | R Documentation

## Calculate Classification Accuracy

### Description

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

    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(rdp(), seq)

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

[Package rRDP version 1.21.0 Index]