The gsc-weighting package

[Tags: bsd3, library]

In their 1994 paper "Volume Changes in Protein Evolution", Gerstein, Sonnhammer and Chothia developed a weighting procedure for protein sequences to avoid over-represented sequences in the appendix "A Method to Weight Protein Sequences to Correct for Unequal Representation". Although their method was developed for protein sequences, it is readily extended to work on any measurable set.

This package calculates GSC weights for any reasonable dendrogram. If you want to recreate their algorithm, then just use UPGMA as linkage and residue identity as distance function when creating the dendrogram.

Changes in version 0.2:

Changes in version 0.1.1.1:

Changes in version 0.1.1:

Properties

Versions0.1, 0.1.0.1, 0.1.0.2, 0.1.1, 0.1.1.1, 0.2, 0.2.1, 0.2.2
Change logNone available
Dependenciesbase (==4.*), hierarchical-clustering (==0.4.*) [details]
LicenseBSD3
AuthorFelipe Almeida Lessa
Maintainerfelipe.lessa@gmail.com
CategoryClustering
Source repositoryhead: git clone https://github.com/meteficha/gsc-weighting
UploadedTue Jul 21 22:24:46 UTC 2015 by FelipeLessa
DistributionsNixOS:0.2.2
Downloads998 total (64 in last 30 days)
Votes
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StatusDocs available [build log]
Last success reported on 2015-07-21 [all 1 reports]

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