The BiobaseNewick package

[Tags:bsd3, library, test]

This is a simple parser for Newick trees. The parser returns a rose tree. Each node is labelled with the node name (or an empty string for anonymous nodes) and a distance (0 if not given).

Includes conversion to an efficient static forest.


[Skip to Readme]

Properties

Versions 0.0.0.1
Change log changelog.md
Dependencies aeson (>=0.8 && <0.11), attoparsec (>=0.12 && <0.14), base (>=4.7 && <4.9), binary (==0.7.*), cereal (>=0.4 && <0.6), cereal-text (==0.1.0.*), containers (==0.5.*), fgl (>=5.5 && <6.0), ForestStructures (==0.0.0.*), QuickCheck (>=2.7 && <2.9), text (==1.2.*), text-binary (>=0.1.0 && <0.2.2), vector (>=0.10 && <0.12) [details]
License BSD3
Copyright Christian Hoener zu Siederdissen, 2015-2016
Author Christian Hoener zu Siederdissen
Maintainer choener@bioinf.uni-leipzig.de
Category Bioinformatics
Home page https://github.com/choener/BiobaseNewick
Bug tracker https://github.com/choener/BiobaseNewick/issues
Source repository head: git clone git://github.com/choener/BiobaseNewick
Uploaded Sun Mar 13 23:23:00 UTC 2016 by ChristianHoener
Distributions NixOS:0.0.0.1
Downloads 59 total (7 in the last 30 days)
Votes
0 []
Status Docs available [build log]
Last success reported on 2016-03-13 [all 1 reports]

Modules

[Index]

Downloads

Maintainer's Corner

For package maintainers and hackage trustees

Readme for BiobaseNewick

Readme for BiobaseNewick-0.0.0.1

Build Status

BiobaseNewick

This is a simple parser for Newick trees. The parser returns a rose tree. Each node is labelled with the node name (or an empty string for anonymous nodes) and a distance (0 if not given).

Newick trees can be ex- and imported into the Newick tree format. We also have serialization to the usual serializers.

This package was written mostly to complement a course a Univ. Leipzig. There is a more comprehensive package written by R. Newton http://hackage.haskell.org/package/phybin which you might want instead.

Contact

Christian Hoener zu Siederdissen
Leipzig University, Leipzig, Germany
choener@bioinf.uni-leipzig.de
http://www.bioinf.uni-leipzig.de/~choener/