localScore (version 1.0.6)

localScore-package: Package for sequence analysis by local score

Description

Provides functionalities for:

  • calculating the local score

  • calculating statistical relevance (p-value) to find a local Score in a sequence of given distribution.

Arguments

Details

Please refer to the vignette of this package or the manual for details on how to use this package.

References

p-value:

  • An Improved Approximation For Assessing The Statistical Significance of molecular Sequence Features, Mercier and al 2003

  • Exact distribution for the local score of one i.i.d. random sequence, Sabine Mercier and JJ Daudin, 2001

  • Limit Distributions of Maximal Segmental Score among Markov-Dependent Partial Sums, Karlin and Dembo 1992

  • Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes, Karlin and al 1990

local Score:

  • Detection de courts segments inverses dans les genomes: methodes et applications, David Robelin 2005

  • A Linear Time Algorithm for Finding All Maximal Scoring Subsequences, Constable and Bates 1985