getEvents {amplican} | R Documentation |
Transforms aligned strings into GRanges representation with events of deletions, insertions and mismatches. Subject should come from one amplicon sequence, after alignment to many sequences (patterns).
getEvents(pattern, subject, scores, ID = "NA", ampl_shift = 1L, ampl_start = 1L, strand_info = "+")
pattern |
(character) Aligned pattern. |
subject |
(character) Aligned subject. |
scores |
(integer) Alignment scores of the pattern and subject. |
ID |
(character) Will be used as seqnames of output GRanges. |
ampl_shift |
(numeric) Possible shift of the amplicons. |
ampl_start |
(numeric) Real amplicon starts.
|
strand_info |
(character) Strands to assign. |
(GRanges
) Same as events.