AlignmentAlgorithms: Collection of alignment algorithms

[ algorithms, bioinformatics, data-structures, gpl, library, linguistics ] [ Propose Tags ]

generalized Algebraic Dynamic Programming

A selection of (sequence) alignment algorithms. Both terminal, and syntactic variables, as well as the index type is not fixed here. This makes it possible to select the correct structure of the grammar here, but bind the required data type for alignment in user code.

That being said, these algorithms are mostly aimed towards sequence alignment problems.

List of grammars:


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Versions [RSS] [faq] 0.0.1.0, 0.0.1.2, 0.0.2.0, 0.0.2.1, 0.1.0.0
Change log changelog.md
Dependencies ADPfusion (>=0.4.0.2 && <0.5.1), base (>=4.7 && <4.9), containers (==0.5.*), fmlist (==0.9.*), FormalGrammars (==0.2.1.*), GrammarProducts (==0.1.1.*), PrimitiveArray (>=0.6.0 && <0.7.1), vector (>=0.10 && <0.12) [details]
License GPL-3.0-only
Copyright Christian Hoener zu Siederdissen, 2013-2015
Author Christian Hoener zu Siederdissen, 2013-2015
Maintainer choener@bioinf.uni-leipzig.de
Category Algorithms, Data Structures, Bioinformatics, Linguistics
Home page https://github.com/choener/AlignmentAlgorithms
Bug tracker https://github.com/choener/AlignmentAlgorithms/issues
Source repo head: git clone git://github.com/choener/AlignmentAlgorithms
Uploaded by ChristianHoener at 2015-11-23T15:01:07Z
Distributions NixOS:0.1.0.0
Downloads 4047 total (35 in the last 30 days)
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Status Hackage Matrix CI
Docs available [build log]
Last success reported on 2015-12-05 [all 3 reports]

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Readme for AlignmentAlgorithms-0.0.2.1

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AlignmentAlgorithms

generalized ADPfusion Homepage

A selection of (sequence) alignment algorithms. Both terminal, and syntactic variables, as well as the index type is not fixed here. This makes it possible to select the correct structure of the grammar here, but bind the required data type for alignment in user code.

Contact

Christian Hoener zu Siederdissen
Leipzig University, Leipzig, Germany
choener@bioinf.uni-leipzig.de
http://www.bioinf.uni-leipzig.de/~choener/