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BiobaseXNA: Efficient RNA/DNA representations

[ bioinformatics, bsd3, library, program ] [ Propose Tags ] [ Report a vulnerability ]

This is a base library for bioinformatics with emphasis on RNA and DNA primary structure.

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

new in 0.7

  • updated to PrimitiveArray >= 0.5

new in 0.6.2.0

  • Updated to PrimitiveArray >= 0.2.0.0

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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)
Dependencies base (>3 && <5), bytestring (>=0.10), cmdargs (>=0.10), containers (>=0.4), csv (==0.1.2), file-embed (>=0.0.4.7), primitive (>=0.5), PrimitiveArray (>=0.5), repa (>=3.2), text (>=0.11), tuple (>=0.2), vector (>=0.10) [details]
License GPL-3.0-only
Copyright Christian Hoener zu Siederdissen, 2011-2013
Author Christian Hoener zu Siederdissen
Maintainer choener@tbi.univie.ac.at
Category Bioinformatics
Home page http://www.tbi.univie.ac.at/~choener/
Source repo head: git clone git://github.com/choener/BiobaseXNA
Uploaded by ChristianHoener at 2013-04-30T21:14:47Z
Distributions
Reverse Dependencies 17 direct, 2 indirect [details]
Executables SubOptDistance
Downloads 31640 total (41 in the last 30 days)
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Status Docs uploaded by user
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