findUnmutatedCalls - Determine which calls represent an unmutated allele
Description¶
findUnmutatedCalls
determines which allele calls would represent a
perfect match with the germline sequence, given a vector of allele calls and
mutation counts. In the case of multiple alleles being assigned to a
sequence, only the subset that would represent a perfect match is returned.
Usage¶
findUnmutatedCalls(allele_calls, sample_seqs, germline_db)
Arguments¶
- allele_calls
- vector of strings respresenting Ig allele calls, where multiple calls are separated by a comma.
- sample_seqs
- V(D)J-rearranged sample sequences matching the order
of the given
allele_calls
. - germline_db
- vector of named nucleotide germline sequences
Value¶
A vector of strings containing the members of allele_calls
that represent unmutated sequences.
Examples¶
# Find which of the sample alleles are unmutated
calls <- findUnmutatedCalls(AIRRDb$v_call, AIRRDb$sequence_alignment,
germline_db=SampleGermlineIGHV)