| localScore-package | Package for sequence analysis by local score |
| 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 | Dictionnaire |
| exact_mc | Exact method for p-value [Markov chains] |
| 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 | Long protein sequence |
| mcc | MCC [p-value] [iid] |
| MidSeq | Protein sequence |
| monteCarlo | Monte Carlo method [p-value] |
| monteCarlo_double | Monte Carlo method for real score case [p-value] |
| MySeqList | Several sequences |
| 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 |
| sequences2transmatrix | Transition matrix from sequence(s) |
| ShortSeq | Short protein sequence |
| stationary_distribution | Stationary distribution [Markov chains] |
| transmatrix2sequence | Sampling function for Markov chains |