accuracy | R Documentation |
Calculate the classification accuracy at a given phylogenetic level.
accuracy(actual, predicted, rank)
confusionTable(actual, predicted, rank)
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. |
The accuracy or a confusion table.
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")
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