Classification matrix estimating accuracy of model.

Source: R/classMat.R

Classification matrix estimating accuracy of model.

classMat(comb)

Arguments

comb

List containing both negtive (n) and positive (v) clonotype percentages.

Value

Matrix with % correct predictions from training data.

Examples

FIELD <- "vGeneName aminoAcid jGeneName"
COUNT <- "copy"
P_CUTOFF <- 0.1
MIN_PUBLIC <- 2
COPY_RANGE <- "1 99"

listPos <- tsvDir(system.file("extdata", "Post", package="iCAT"))
listNeg <- tsvDir(system.file("extdata", "Pre", package="iCAT"))

naive <- readTrn(listNeg, FIELD, COUNT, COPY_RANGE, "naive")
vaccs <- readTrn(listPos, FIELD, COUNT, COPY_RANGE, "vacc")

mod <- train(naive, vaccs, listNeg, listPos, FIELD, COUNT, COPY_RANGE, P_CUTOFF, MIN_PUBLIC, NULL)
classMat(mod)
#>          Unexposed Exposed % Correct
#> Negative        32       0 100.00000
#> Positive         1      57  98.27586