The BiobaseTurner package

[ Tags: bioinformatics, gpl, library ] [ Propose Tags ]

A data structure for Mathews / Turner RNA and DNA energy parameters. This library currently only provides an importer, not export functions. There are two reasons: (i) We currently have no use-case where we need more than import facilities (ii) The file structure is geared towards humans, not machines. If you need to be able to export, send a mail.

NOTE This is rather fragile as some files use different index enumerations, which we handle rather... simplistically.

In principle, all parameters should be symmetric regarding the stem direction. However, there is one asymmetry case in dnastack.dh. We do not fix this problem as we do not change the source files.


Dependencies base (>3 && <5), BiobaseXNA (>=0.7), bytestring (>=0.9), bytestring-lexing (>=0.4), conduit (>=0.5), containers (>=0.4), filepath (>=1), lens (>=3.8), primitive (>=0.5), PrimitiveArray (>=0.5), repa (>=3.2), split (>=0.2), vector (>=0.10) [details]
License GPL-3
Copyright Christian Hoener zu Siederdissen, 2010-2013
Author Christian Hoener zu Siederdissen
Category Bioinformatics
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Source repo head: git clone git://
Uploaded Thu Apr 25 00:42:45 UTC 2013 by ChristianHoener
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