Description Usage Arguments Value Examples
Simple function using Rcpp to compute semi-global Needleman-Wunsch score. The first sequence is short, the second long.
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short |
a short integer vector coding "ACGT" as c(0,1,2,3). |
long |
a long integer vector coding "ACGT" as c(0,1,2,3). |
S |
a scoring matrix ( |
g |
an integer vector holding the gap penalty. |
D |
Score value of pairwise comparison. |
L |
Length of pairwise alignment. |
j |
Endpoint of short sequence in long sequence. |
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