Calculate oligotypes for aligned FASTA sequences

CalcEntropy.seq | calculates the entropy for a nucleotide sequence provided as... |

CalcEntropy.word | calculates the entropy for a concatenated nucleotide sequence |

Check.entropy.nseq | Check for a subset of FASTA sequences provided as a list,... |

Count.BrokenStick | Applies the Broken Stick model to a vector of count data. |

GetEnvironmentDatafromFileR | Parse the FASTA headers to retrieve the sample information. |

HGB_0013.fasta | FASTA alignment corresponding to OTU... |

ImportFastaAlignment | Import a FASTA alignment from a file |

MED | Minimum Entropy Decomposition |

MEDMat | Minimum Entropy Decomposition |

mock.fasta | mock data for testing the oligotyping pipeline. |

OnePassProfiling | Provides oligotyping based on a one-pass entropy profiling,... |

OnePassProfilingMat | Provides oligotyping based on a one-pass entropy profiling,... |

otu2ot-package | The package implements the oligotyping procedure in R. |

plotEntropy | Plot the entropy profile for a matrix of sequences |

plot.lm.ci | plots a x,y plot with the result of a linear regression model... |

SampleXOT_Table | creates a Sample-by-OT table. |

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