# Package for Sequence Analysis by Local Score

## Documentation for package ‘localScore’ version 1.0.11

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

localScore-package | Package for sequence analysis by local score
Aeso | Congenital oesophageal atresia data
aeso.data | Deprecated. Use 'Aeso' instead.
automatic_analysis | Automatic analysis
CharSequence2ScoreSequence | Convert a character sequence into a score sequence
CharSequences2ScoreSequences | Convert several character sequences into score sequences
daudin | Daudin [p-value] [iid]
dico | Deprecated. Use 'HydroScore' instead.
exact_mc | Exact method for p-value [Markov chains]
HydroScore | Dictionnaire
karlin | Karlin [p-value] [iid]
karlinMonteCarlo | Monte Carlo - Karlin [p-value]
karlinMonteCarlo_double | Monte Carlo - Karlin for real scores[p-value]
lindley | Lindley process
loadMatrixFromFile | Loads matrix from csv-File
loadScoreFromFile | Load score from file
localScore | Package for sequence analysis by local score
localScoreC | Local score
localScoreC_double | Local score for sequences of floating values
LongSeq | Deprecated. Use 'Seq1093' instead.
maxPartialSumd | Maximum of the partial sum [probability] [iid]
mcc | MCC [p-value] [iid]
MidSeq | Deprecated. Use 'Seq219' instead.
monteCarlo | Monte Carlo method [p-value]
monteCarlo_double | Monte Carlo method for real score case [p-value]
MySeqList | Deprecated. Use 'SeqListSCOPe' instead.
RealScores2IntegerScores | Convert a real scores vector into an integer scores vector
scoreDictionnary2probabilityVector | Check for missing scores values in the score distribution
scoreSequences2probabilityVector | Empirical distribution from sequences
Seq1093 | Long protein sequence
Seq219 | Protein sequence
Seq31 | Short protein sequence
SeqListSCOPe | Several sequences
sequences2transmatrix | Transition matrix from sequence(s)
ShortSeq | Deprecated. Use 'Seq31' instead.
SJSyndrome.data | Stevens-Johnson syndrome data
stationary_distribution | Stationary distribution [Markov chains]
transmatrix2sequence | Sampling function for Markov chains