View source: R/con_primer_coverage.R
check.mutations | R Documentation |
Identifies primers that induce mutations due to mismatch binding.
check.mutations(
primer.seq,
pos.start,
pos.end,
template.df,
covered.seqs,
ORF.data,
mode.directionality = c("fw", "rev"),
mutation.types = c("stop_codon", "substitution")
)
primer.seq |
Primer sequence string. |
pos.start |
Binding position of primer (start). |
pos.end |
Binding position of primer (end). |
template.df |
Template data frame. |
covered.seqs |
Identifiers of covered templates. |
ORF.data |
Reading frame information of templates. |
mode.directionality |
Directionality of primers. |
mutation.types |
Character vector of the mutation types to be checked for. |
Checks for one primer and all covered templates whether any templates are bound with mismatches such that a forbidden mutation is induced. A boolean vector indicating which binding events induce a forbidden mutation is returned.
TRUE if the primer.seq
induces a mutation that is
forbidden according to the provided mutation.types
.
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