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! add.missing.loci overrides keep.na.Usage
filterProfile(data, ref, add.missing.loci = FALSE, keep.na = FALSE,
ignore.case = TRUE, debug = FALSE)
Arguments
data
data frame with genotype data in 'slim' format.
ref
data frame with reference profile in 'slim' format.
add.missing.loci
logical. TRUE add loci present in ref but not in data.
Overrides keep.na=FALSE.
keep.na
logical. FALSE discards NA alleles.
TRUE keep loci/sample even if no matching allele.
ignore.case
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'.