SCORER2 (version 0.99.0)

scorer2-package: Predict oligomerization state of 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

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)