GenussFold: MCFGs for Genus-1 RNA Pseudoknots
[ bioinformatics, formal-languages, gpl, library, program ]
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generalized Algebraic Dynamic Programming
Genus-1 RNA pseudoknot grammars implemented with a multiple context-free language. Compared to the usual implementations that are based on explicit recursions, an implementation based on a formal grammar is much more pleasing to write.
Consult the README for details.
BioInf.GenussFold.PKN
: Recursive pseudoknots with a simple basepair maximization scoring scheme.
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Flags
Manual Flags
Name | Description | Default |
---|---|---|
debug | dump intermediate Core files | Disabled |
Use -f <flag> to enable a flag, or -f -<flag> to disable that flag. More info
Downloads
- GenussFold-0.0.0.2.tar.gz [browse] (Cabal source package)
- Package description (as included in the package)
Maintainer's Corner
For package maintainers and hackage trustees
Candidates
- No Candidates
Versions [RSS] | 0.0.0.1, 0.0.0.2 |
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Change log | changelog.md |
Dependencies | ADPfusion (>=0.4.1.1 && <0.4.2), ansi-wl-pprint (>=0.6.7 && <0.6.8), base (>=4.7 && <4.9), bytestring (>=0.10 && <0.11), cmdargs (>=0.10 && <0.11), containers, data-default (>=0.5 && <0.6), FormalGrammars (>=0.2.1 && <0.2.2), GenussFold, lens (>=4.0 && <5.0), mtl (>=2.0 && <3.0), PrimitiveArray (>=0.6.0 && <0.6.2), semigroups (>=0.16 && <0.17), template-haskell, text (>=1.0 && <1.3), transformers (>=0.3 && <0.5), unordered-containers (>=0.2 && <0.3), 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, 2015 |
Author | Christian Hoener zu Siederdissen, 2015 |
Maintainer | choener@bioinf.uni-leipzig.de |
Category | Formal Languages, Bioinformatics |
Home page | https://github.com/choener/GenussFold |
Bug tracker | https://github.com/choener/GenussFold/issues |
Source repo | head: git clone git://github.com/choener/GenussFold |
Uploaded | by ChristianHoener at 2015-07-16T17:51:09Z |
Distributions | |
Executables | GenussFold |
Downloads | 1784 total (2 in the last 30 days) |
Rating | (no votes yet) [estimated by Bayesian average] |
Your Rating | |
Status | Docs available [build log] Last success reported on 2015-07-16 [all 1 reports] |