Usage
maskAT(data, ref = NULL, mask.height = TRUE, height = 500, mask.sample = TRUE, per.dye = TRUE, range.sample = 20, mask.ils = TRUE, range.ils = 10, ignore.case = TRUE, word = FALSE, debug = FALSE)
Arguments
data
a data frame containing at least 'Dye.Sample.Peak',
'Sample.File.Name', 'Marker', 'Allele', 'Height', and 'Data.Point'.
ref
a data frame containing at least
'Sample.Name', 'Marker', 'Allele'.
mask.height
logical to indicate if high peaks should be masked.
height
integer for global lower peak height threshold for peaks
to be excluded from the analysis. Active if 'mask.peak=TRUE.
mask.sample
logical to indicate if sample allelic peaks should be masked.
per.dye
logical TRUE if sample peaks should be masked per dye channel.
FALSE if sample peaks should be masked globally across dye channels.
range.sample
integer to specify the masking range in (+/-) data points.
Active if mask.sample=TRUE.
mask.ils
logical to indicate if internal lane standard peaks should be masked.
range.ils
integer to specify the masking range in (+/-) data points.
Active if mask.ils=TRUE.
ignore.case
logical to indicate if sample matching should ignore case.
word
logical to indicate if word boundaries should be added before sample matching.
debug
logical to indicate if debug information should be printed.