Generate the prediction status of positive controls in a KASP assay, if present.

Generate the prediction status of positive controls in a KASP assay, if present.

Usage

pred_status(
  plate,
  geno_call = "Call",
  Group_id = "Group",
  blank = "NTC",
  Group_unknown = NULL
)

Arguments

plate

A data frame of KASP genotype calls for one plate.

geno_call

A character indicating the column name used for genotype calls in plate.

Group_id

A character value for the column ID indicating the predictions of the positive controls in plate.

blank

A character value indicating `No Template Controls (NTC)` genotype calls.

Group_unknown

A character value representing unknown genotype status for samples, if present. No genotype prediction can be made for such samples.

Value

A data frame with the prediction status of each sample added as a column.

Details

The function recodes the prediction status of each sample as follows: TRUE = prediction matches observed genotype call FALSE = prediction does not match observed genotype call Unverified = Either observed genotype call could not be made or expected genotype could not be made prior to KASP genotyping or both. Blank = NTC wells

Examples

# \donttest{
# example code
library(panGenomeBreedr)
# Get Plate 1

dat1 <- panGenomeBreedr::beta_carotene[1:96,]
dat1 <- pred_status(plate = dat1,
geno_call = 'Call',
Group_id = 'Group',
blank = 'NTC',
Group_unknown = '?')
# }