calculateResultType: Calculate result type

Description

calculateResultType calculate the result type for samples.

Usage

calculateResultType(data, kit = NULL, addMissingMarker = TRUE,
  threshold = NULL, mixtureLimits = NULL, partialLimits = NULL,
  subsetName = NA, markerSubset = NULL, debug = FALSE)

Arguments

data

a data frame containing at least the column 'Sample.Name'.

kit

character string or integer defining the kit.

addMissingMarker

logical, defualt is TRUE which adds missing markers.

threshold

integer indicating the dropout threshold.

mixtureLimits

integer or vector indicating subtypes of 'Mixture'.

partialLimits

integer or vector indicating subtypes of 'Partial'.

subsetName

string naming the subset of 'Complete'.

markerSubset

string with marker names defining the subset of 'Complete'.

debug

logical indicating printing debug information.

Value

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

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 'mixtureLimits' define subtypes of 'Mixture' "> [mixtureLimits] markers". An integer or vector passed to 'partialLimits' define subtypes of 'Partial' "> [partialLimits] peaks". A string with marker names separated by pipe (|) passed to 'markerSubset' and a string 'subsetName' defines a subtype of 'Partial' "Complete [subsetName]".