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Home: Perl Programming Help: Beginner: help with written algorithm - modification

stranistranic New User May 3, 2016, 3:59 AM Post #1 of 3 (2015 views) help with written algorithm - modification Can't Post Hi, I have found algorithm on perlmonk for sequence alignment, algorithm work fine: http://www.perlmonks.org/?node_id=819506 how I modify that program write also max score? (This post was edited by stranistranic on May 3, 2016, 4:00 AM)

Laurent_R Veteran / Moderator May 8, 2016, 10:12 AM Post #2 of 3 (1979 views) Re: [stranistranic] help with written algorithm - modification [In reply to] Can't Post You have to explain what exactly you mean by max score. Most people here are not biologists and have trouble understanding these things.

stranistranic New User May 8, 2016, 11:24 AM Post #3 of 3 (1975 views) Re: [Laurent_R] help with written algorithm - modification [In reply to] Can't Post sorry, the max score is in the matrix where you go throught named traceback step. The best alignment amoung the alignments can be identified using the maxsimum alignment score from match, mismatch and gap, which may be user defined. I hope I help you. the same is in the smith waterman algorithmhttp://etutorials.org/Misc/blast/Part+II+Theory/Chapter+3.+Sequence+Alignment/3.2+Local+Alignment+Smith-Waterman/

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