AlignmentAlgorithms: Collection of alignment algorithms
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:
global alignment (Needleman-Wunsch style)
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- AlignmentAlgorithms-0.0.2.0.tar.gz [browse] (Cabal source package)
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| Versions [RSS] | 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 && <0.4.2), base (>=4.7 && <4.9), containers (>=0.5 && <0.6), fmlist (>=0.9 && <0.10), FormalGrammars (>=0.2.1 && <0.2.2), GrammarProducts (>=0.1.1 && <0.1.2), PrimitiveArray (>=0.6.0 && <0.6.2), vector (>=0.10 && <0.11) [details] |
| Tested with | ghc ==7.8.4, ghc ==7.10.1 |
| 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 2015-07-14T20:05:05Z |
| Distributions | |
| Reverse Dependencies | 1 direct, 0 indirect [details] |
| Downloads | 4684 total (9 in the last 30 days) |
| Rating | (no votes yet) [estimated by Bayesian average] |
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| Status | Docs available [build log] Last success reported on 2015-07-14 [all 1 reports] |
Readme for AlignmentAlgorithms-0.0.2.0
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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/