Learn R Programming

⚠️There's a newer version (2.0.3) of this package.Take me there.

localScore (version 1.0.8)

Package for Sequence Analysis by Local Score

Description

Functionalities for calculating the local score and calculating statistical relevance (p-value) to find a local Score in a sequence of given distribution (S. Mercier and J.-J. Daudin (2001) ) ; S. Karlin and S. Altschul (1990) ; S. Mercier, D. Cellier and F. Charlot (2003) ; A. Lagnoux, S. Mercier and P. Valois (2017) ).

Copy Link

Version

Install

install.packages('localScore')

Monthly Downloads

180

Version

1.0.8

License

GPL (>= 2) | file LICENSE

Maintainer

David Robelin

Last Published

May 17th, 2022

Functions in localScore (1.0.8)

CharSequence2ScoreSequence

Convert a character sequence into a score sequence

Protein sequence

Short protein sequence

Daudin [p-value] [iid]

scoreSequences2probabilityVector

Empirical distribution from sequences

sequences2transmatrix

Transition matrix from sequence(s)

loadScoreFromFile

Load score from file

automatic_analysis

Automatic analysis

CharSequences2ScoreSequences

Convert several character sequences into score sequences

localScoreC_double

Local score for sequences of floating values

monteCarlo_double

Monte Carlo method for real score case [p-value]

scoreDictionnary2probabilityVector

Check for missing scores values in the score distribution

RealScores2IntegerScores

Convert a real scores vector into an integer scores vector

Several sequences

stationary_distribution

Stationary distribution [Markov chains]

transmatrix2sequence

Sampling function for Markov chains

Lindley process

loadMatrixFromFile

Loads matrix from csv-File

Exact method for p-value [Markov chains]

localScore-package

Package for sequence analysis by local score

Karlin [p-value] [iid]

MCC [p-value] [iid]

Monte Carlo method [p-value]

Long protein sequence

karlinMonteCarlo

Monte Carlo - Karlin [p-value]

karlinMonteCarlo_double

Monte Carlo - Karlin for real scores[p-value]