filterProfile: Filter out profiles from DNA results
Description
filterProfile Filters out the result matching a specified
known profiles from typing data containing 'noise' such as stutters.
If 'ref' does not contain a 'Sample.Name' column it will be used
as reference for all samples in 'data'.
NB! addMissingLoci overrides keepNA.Usage
filterProfile(data, ref, addMissingLoci = FALSE, keepNA = FALSE,
ignoreCase = TRUE, debug = FALSE)
Arguments
data
data frame with genotype data in 'slim' format.
ref
data frame with reference profile in 'slim' format.
keepNA
logical. FALSE discards NA alleles.
TRUE keep loci/sample even if no matching allele.
addMissingLoci
logical. TRUE add loci present in ref but not in data.
Overrides keepNA=FALSE.
ignoreCase
logical TRUE ignore case.
debug
logical indicating printing debug information.
Value
- data.frame with extracted result.
Details
Returns data where allele names match 'ref' allele names.
Required columns are: 'Sample.Name', 'Marker', and 'Allele'.