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AlignmentAlgorithms

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 for sequences: global alignment linear scoring: Needleman-Wunsch style affine scoring: Gotoh semiglobal alignment overhang alignment List of grammar for trees: global alignment linear scoring affine scoring simplified affine scoring global editing linear scoring We now provide tree alignment and editing algorithms as well. We do not depend on ADPfusionForest to achieve this because grammar rules are completely disconnected from the underlying ADPfusion machinery.

Ecosystem
hackage.haskell.org
Latest Release
0.1.0.0
almost 9 years ago
Versions
5
Downloads
4,768 total
Dependent Repos
1
Links
Registry hackage.haskell.org
Source Repository
JSON API View JSON
CodeMeta codemeta.json
Package Details
PURL pkg:hackage/AlignmentAlgorithms
spec
License GPL-3.0-only
First Release almost 11 years ago
Last Synced 25 days ago
Repository
Stars 1 on GitHub
Forks 0 on GitHub