I've googled around a bit. From reading the publications and software documentation, its clear that there is a distance matrix being used but it doesnt …

using dynamic programming of the global alignment. Use match score = 1, Gap Penalty = -1, and mismatch penalty = -1. Show the optimal path …

Hello, I have a question, can someone explain to me why dynamic programming is not used in multiple sequences alignment? I found many info about …

I want to perform global sequence alignment on 3 DNA sequences. Now while making the scoring matrix for the dynamic programming, there are 7 possible …

My scoring function is as follows: - Match: 4 - Mismatch: -6 - Gap: -4 This scoring function gives me an optimal alignment if I …

<p>I've been learning about how HMMs (<a href='http://en.wikipedia.org/wiki/Hidden_Markov_model'>hidden markov models</a>) are used for finding sequencing errors, and to discover the hidden data we use a …

<p>IS scoring matrix always a symmetrical one ? like this ?</p> <pre><code> A C G T A 1 2 0 0 C 2 5 5 …

<p>Hi according to <a href="http://www.cse.unt.edu/~mikler/Courses/BioCom2011/slides/pdf/multiple_alignment.pdf.">http://www.cse.unt.edu/~mikler/Courses/BioCom2011/slides/pdf/multiple_alignment.pdf.</a> </p> <p>Consider these 4 sequences s1 GATTCA s2 GTCTGA s3 GATATT s4 GTCAG</p> <p>now there are 6 possible alignments possible. …

<p>Hi. When there is a match score, mismatch score and gap penalty the problem of aligning sequences can be done using dynamic programming. Is it …

<p>I have a project on Double Dynamic Programming. I am suppose to use Superposition and Dynamic Programming together, but I don't know how to go …