Numerical solutions for patterns statistics on Markov chains.

Gregory Nuel

doi:10.2202/1544-6115.1219

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PubMed · 17049037

Numerical solutions for patterns statistics on Markov chains.

Gregory Nuel

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Abstract

We propose here a review of the methods available to compute pattern statistics on text generated by a Markov source. Theoretical, but also numerical aspects are detailed for a wide range of techniques (exact, Gaussian, large deviations, binomial and compound Poisson). The SPatt package (Statistics for Pattern, free software available at http://stat.genopole.cnrs.fr/spatt) implementing all these methods is then used to compare all these approaches in terms of computational time and reliability in the most complete pattern statistics benchmark available at the present time.

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Algorithms Bacillus subtilis Chromosome Mapping Computational Biology Computer Simulation Data Interpretation, Statistical Genome, Bacterial Genome, Viral HIV-1 Likelihood Functions Markov Chains Models, Statistical Normal Distribution Poisson Distribution Probability Reproducibility of Results Software Comparative Study Journal Article

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Gregory Nuel. 2006-10-17. Numerical solutions for patterns statistics on Markov chains.. https://doi.org/10.2202/1544-6115.1219

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