BiobaseXNA: Efficient RNA/DNA representations
This is a base library for bioinformatics with emphasis on RNA and DNA primary structure as well as amino acid sequences.
Provided are efficient encodings for short sequences, as required by RNA folding tools. Extended RNA secondary structures can be represented as well.
Contains data from:
Frequency and isostericity of RNA base pairs Jesse Stombaugh, Craig L. Zirbel, Eric Westhof, and Neocles B. Leontis Nucl. Acids Res. (2009)
http://dx.crossref.org/10.1093%2Fnar%2Fgkp011
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- BiobaseXNA-0.9.2.0.tar.gz [browse] (Cabal source package)
- Package description (as included in the package)
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| Versions [RSS] | 0.5.0.0, 0.5.0.1, 0.5.1.0, 0.5.2.0, 0.5.3.0, 0.5.4.0, 0.5.5.0, 0.5.6.0, 0.6.0.0, 0.6.2.0, 0.6.2.1, 0.6.2.2, 0.6.2.3, 0.6.2.4, 0.6.2.5, 0.6.3.0, 0.6.3.1, 0.7.0.0, 0.7.0.1, 0.7.0.2, 0.8.1.0, 0.8.1.1, 0.8.2.0, 0.8.3.0, 0.9.1.0, 0.9.1.1, 0.9.2.0, 0.9.2.1, 0.9.3.0, 0.9.3.1, 0.10.0.0, 0.11.0.0, 0.11.1.0, 0.11.1.1 (info) |
|---|---|
| Change log | changelog.md |
| Dependencies | aeson (>=0.8 && <0.10), base (>=4.7 && <4.9), bimaps (>=0.0.0.2 && <0.0.1.0), binary (>=0.7 && <0.8), BiobaseXNA, bytes (>=0.15 && <0.16), bytestring (>=0.10 && <0.11), cereal (>=0.4 && <0.5), cereal-vector (>=0.2 && <0.3), cmdargs (>=0.10 && <0.11), containers (>=0.5 && <0.6), csv (>=0.1 && <0.2), deepseq (>=1.3 && <1.5), file-embed (>=0.0.8 && <0.0.9), hashable (>=1.2 && <1.3), lens (>=4.0 && <4.13), primitive (>=0.5 && <0.7), PrimitiveArray (>=0.6.0 && <0.6.2), split (>=0.2 && <0.3), text (>=1.0 && <1.3), tuple (>=0.3 && <0.4), vector (>=0.10 && <0.11), vector-binary-instances (>=0.2 && <0.3), vector-th-unbox (>=0.2 && <0.3) [details] |
| License | GPL-3.0-only |
| Copyright | Christian Hoener zu Siederdissen, 2011 - 2015 |
| Author | Christian Hoener zu Siederdissen |
| Maintainer | choener@bioinf.uni-leipzig.de |
| Category | Bioinformatics |
| Home page | https://github.com/choener/BiobaseXNA |
| Bug tracker | https://github.com/choener/BiobaseXNA/issues |
| Source repo | head: git clone git://github.com/choener/BiobaseXNA |
| Uploaded | by ChristianHoener at 2015-07-14T20:28:47Z |
| Distributions | |
| Reverse Dependencies | 17 direct, 2 indirect [details] |
| Executables | SubOptDistance |
| Downloads | 30968 total (78 in the last 30 days) |
| Rating | (no votes yet) [estimated by Bayesian average] |
| Your Rating | |
| Status | Docs available [build log] Last success reported on 2015-07-14 [all 1 reports] |
Readme for BiobaseXNA-0.9.2.0
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BiobaseXNA
Efficient encoding of biological sequences.
Contact
Christian Hoener zu Siederdissen
Leipzig University, Leipzig, Germany
choener@bioinf.uni-leipzig.de
http://www.bioinf.uni-leipzig.de/~choener/