selectNovel - Select rows containing novel alleles
Description¶
selectNovel
takes the result from findNovelAlleles and
selects only the rows containing unique, novel alleles.
Usage¶
selectNovel(novel, keep_alleles = FALSE)
Arguments¶
- novel
data.frame
of the type returned by findNovelAlleles.- keep_alleles
logical
indicating if different alleles leading to the same novel sequence should be kept. See Details.
Value¶
A data.frame
containing only unique, novel alleles (if any)
that were in the input.
Details¶
If, for instance, subject has in his genome IGHV1-2*02
and a novel
allele equally close to IGHV1-2*02
and IGHV1-2*05
, the novel allele may be
detected by analyzing sequences that best align to either of these alleles.
If keep_alleles
is TRUE
, both polymorphic allele calls will
be retained. In the case that multiple mutation ranges are checked for the
same allele, only one mutation range will be kept in the output.
Examples¶
novel <- selectNovel(SampleNovel)