Class

Seed

Describes a seed.

Include Headers

seqan/seeds.h

Parameters

The type number that schuld be used. Must have negative numbers (e.g. int/long). | |

The seed type used. |

Specializations

Describes a seed with start and end position2 and diagonal upper and lower bounds. Additionaly diagonal segments between start and end position2 are stored. | |

Data structure which represents a seed of multiple sequences. | |

Describes a seed with start and end position and diagonal upper and lower bounds. |

Functions

Adds a seed to an existing set. | |

Calculates a banded alignment around a Seed. | |

Dimension of a seed. | |

Returns the diagonal of the end point. | |

Extends a seed. | |

Extends a seed and increases the score. | |

Returns the most left diagonal of the seed (maximum diagonal value). | |

Returns the first position of the seed in the query. | |

Returns the first position of the seed in the database. | |

The begin position of segment in a seed. | |

Returns the most right diagonal of the seed (minimum diagonal value). | |

Returns the last position of the seed in the query. | |

Returns the last position of the seed in the database. | |

The end position of segment in a seed. | |

Sets a new value for the most left diagonal. | |

Updates the start point of the seed. | |

Updates the start point of the seed. | |

Sets begin position of segment in a seed. | |

Sets a new value for the most right diagonal. | |

Updates the end point of the seed. | |

Updates the end point of the seed. | |

Sets end position of segment in a seed. | |

Returns the diagonal of the start point. |

SeqAn - Sequence Analysis Library - www.seqan.de