calculateResultType: Calculate Result Type

Description

Calculate the result type for samples.

Usage

calculateResultType(
  data,
  kit = NULL,
  add.missing.marker = TRUE,
  threshold = NULL,
  mixture.limits = NULL,
  partial.limits = NULL,
  subset.name = NA,
  marker.subset = NULL,
  debug = FALSE
)

Value

data.frame with columns 'Sample.Name','Type', and 'Subtype'.

Arguments

data: a data frame containing at least the column 'Sample.Name'.
kit: character string or integer defining the kit.
add.missing.marker: logical, default is TRUE which adds missing markers.
threshold: integer indicating the dropout threshold.
mixture.limits: integer or vector indicating subtypes of 'Mixture'.
partial.limits: integer or vector indicating subtypes of 'Partial'.
subset.name: string naming the subset of 'Complete'.
marker.subset: string with marker names defining the subset of 'Complete'.
debug: logical indicating printing debug information.

Details

Calculates result types for samples in 'data'. Defined types are: 'No result', 'Mixture', 'Partial', and 'Complete'. Subtypes can be defined by parameters. An integer passed to 'threshold' defines a subtype of 'Complete' "Complete profile all peaks >threshold". An integer or vector passed to 'mixture.limits' define subtypes of 'Mixture' "> [mixture.limits] markers". An integer or vector passed to 'partial.limits' define subtypes of 'Partial' "> [partial.limits] peaks". A string with marker names separated by pipe (|) passed to 'marker.subset' and a string 'subset.name' defines a subtype of 'Partial' "Complete [subset.name]".