BiobaseInfernal: Infernal data structures and tools
Provides import and export facilities for Infernal/Rfam data formats. We include Stockholm, CM, verbose Infernal results, and tabulated Infernal results. Some small tools are included.
The VerboseHit format is slightly extended to allow simple annotations. This extension should be backward-compatible with standard-compliant parsers.
This package uses Int's to store sequence position information. Don't compile for 32bit. (And yes, this is a TODO, to change to Int64).
Changes in 0.7.1.0
bumped dependencies, compatible to newest BiobaseXNA, PrimitiveArray
Changes in 0.7.0.0
work-in-progress release (some features missing)
working CM parsing
type defns have changed. using phantom types to specify what kind of model we are working with
using conduit instead of iteratee
Modules
[Index]
Downloads
- BiobaseInfernal-0.7.1.0.tar.gz [browse] (Cabal source package)
- Package description (as included in the package)
Maintainer's Corner
For package maintainers and hackage trustees
Candidates
| Versions [RSS] | 0.0.2.0, 0.0.2.1, 0.5.0.0, 0.5.1.0, 0.5.2.0, 0.5.3.0, 0.5.3.1, 0.5.4.0, 0.5.4.1, 0.6.0.0, 0.6.0.1, 0.6.2.0, 0.7.0.0, 0.7.0.1, 0.7.1.0, 0.8.1.0 |
|---|---|
| Dependencies | attoparsec (>=0.10 && <0.11), attoparsec-conduit (>=0.5 && <0.6), base (>3 && <5), BiobaseXNA (>=0.7 && <0.8), biocore (==0.2), bytestring, bytestring-lexing (>=0.4 && <0.5), conduit (>=0.5 && <0.6), containers, either-unwrap (==1.1), lens (>=3 && <4), primitive (>=0.5), PrimitiveArray (>=0.5 && <0.6), repa (>=3.2 && <3.3), transformers (>=0.3 && <0.4), tuple (>=0.2 && <0.3), vector (>=0.10) [details] |
| License | GPL-3.0-only |
| Copyright | Christian Hoener zu Siederdissen, 2011 |
| 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/BiobaseInfernal |
| Uploaded | by ChristianHoener at 2013-09-20T14:28:00Z |
| Distributions | |
| Reverse Dependencies | 3 direct, 0 indirect [details] |
| Downloads | 16145 total (29 in the last 30 days) |
| Rating | (no votes yet) [estimated by Bayesian average] |
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| Status | Docs uploaded by user Build status unknown [no reports yet] |