I am browsing through the Biostring on-line docu,mentation. I wonder whether the illustarted techniques (functions) for Pairwise Sequence Alignments are being usd in any of the packages aimed at predicting miRNA target-genes match.
I only haveonly used miRANDA which makes us of the Smith-Waterman algorithm. However I cannot recognize any of Biostring techniques for sequence alignment. I may be confused by the lack of documentation & comments in miRANDA C code.
Thank you in advance,
Maura


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