Phylo - Phylogenesis library #1
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UPDATE: The wiki was moved to the proper location: https://github.com/erpicci/Victor/wiki instead of the Phylo directory. |
Added a comment to make clearer the meaning of the way to calculate gap penalties
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Fixed memory leaks which used to lead to exponential memory usage. |
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Fixed gap extension formulae:
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Phylogesis library for the Bioinformatics 2 exam.
Implements UPGMA, NJ and ClustalW algorithm (requested by teacher), plus Fitch-Margoliash clustering algorithm, Feng-Doolitttle and Levenshtein distance metrics and Feng-Doolittle multiple sequence alignment algorithm (not requested, added as an additional effort).
Wiki available within the Phylo directory, or at https://github.com/erpicci/Victor/tree/master/Phylo/wiki
Every entity is doxygen-documented
Tested on latest Ubuntu LTS distribution (g++ version: 4.9.2)
Note: library is written in C++11 and requires g++ version >= 4.7