File List

Here is a list of all documented files with brief descriptions:

[detail level 12]

src | |

alignment.c | Collection of routines for reading alignments |

cycle.h | |

errcodes.h | |

evaluateGenericSpecial.c | Functions for computing the log likelihood at a given branch of the tree (i.e. a virtual root that is placed at this branch) |

genericParallelization.c | Generic master-worker parallelization with either pthreads or MPI |

genericParallelization.h | |

globalVariables.h | |

hash.h | |

lexer.h | |

makenewzGenericSpecial.c | Branch length optimization |

mem_alloc.h | |

models.c | Model related code |

newick.c | Collection of routines for reading and parsing newick trees |

newick.h | |

newviewGenericSpecial.c | Functions that deal (mostly) with conditional likelihood (re)computation |

optimizeModel.c | Model optimization routines |

parsePartition.h | |

pll.h | Data structures for tree and model |

queue.h | |

recom.c | Functions used for recomputation of vectors (only a fraction of LH vectors stored in RAM) |

searchAlgo.c | Collection of routines for performing likelihood computation and branch optimization |

stack.h | |

topologies.c | Miscellanous functions working with tree topology |

treeIO.h | |

utils.c | Miscellaneous general utility and helper functions |

Generated on Thu Nov 21 2013 15:18:03 for Phylogenetic Likelihood Library by 1.8.5