Sparse approaches for the exact distribution of patterns in long multi-states sequences generated by a Markov source

Details Sparse approaches for the exact distribution of patterns in long multi-states sequences generated by a Markov source Sparse approaches for the exact distribution of patterns in long multi-states sequences generated by a Markov source

2010-06-16

arxiv.org/abs/1006.3246v2

Mathematics

Probability

Scientific paper

We present two novel approaches for the computation of the exact distribution of a pattern in a long sequence. Both approaches take into account the sparse structure of the problem. The first approach relies on a partial recursion computing the largest eigenvalue of the the transition matrix of a Markov chain embedding. The second approach uses fast Taylor expansions of an exact bivariate rational reconstruction of the distribution. We illustrate the interest of both approaches on a simple toy-example and two biological applications: the transcription factors of the Human Chromosome 5 and the PROSITE signatures of functional motifs in proteins. On these examples our methods demonstrate their complementarity and their hability to extend the domain of feasibility for exact computations in pattern problems to a new level.

Affiliated with

Also associated with

No associations

Rating

Sparse approaches for the exact distribution of patterns in long multi-states sequences generated by a Markov source does not yet have a rating. At this time, there are no reviews or comments for this scientific paper.

If you have personal experience with Sparse approaches for the exact distribution of patterns in long multi-states sequences generated by a Markov source, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Sparse approaches for the exact distribution of patterns in long multi-states sequences generated by a Markov source will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFWR-SCP-O-100850