scorer-package: Predict oligomerization state of coiled-coil sequences

In SCORER2: SCORER 2.0: an algorithm for distinguishing parallel dimeric and trimeric coiled-coil sequences

Description

Package for predicting the oligomeric state of a coiled-coil sequence

Details

Package:	scorer2
Type:	Package
Version:	1.0
Date:	2014-01-08
License:	GPL >= 2.0

Functions in the SCORER2 package allow the user to apply the SCORER 2.0 prediction algorithm to coiled-coil sequences. Also included are functions to retrain the SCORER 2.0 algorithm using user-defined training data

Author(s)

Thomas L. Vincent [e-mail]

References

Craig T. Armstrong, Thomas L. Vincent, Peter J. Green and Dek N. Woolfson. (2011) SCORER 2.0: an algortihm for distinguishing parallel dimeric and trimeric coiled-coil sequences. Bioinformatics. DOI: 10.1093/bioinformatics/btr299

Examples

# load pssm data
data(pssm)

# predict oligomerization of GCN4 wildtype
GCN4wt.score <- scorer2("GCN4wt", "MKQLEDKVEELLSKNYHLENEVARLKKLV", 
		"abcdefgabcdefgabcdefgabcdefga", pssm,  delta=1)

SCORER2 documentation built on May 2, 2019, 4:06 a.m.