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LOGICOIL (version 0.99.0)

LOGICOIL: multi-state prediction of coiled-coil oligomeric state.

Description

This package contains the functions necessary to run the LOGICOIL algorithm. LOGICOIL can be used to differentiate between antiparallel dimers, parallel dimers, trimers and higher-order coiled-coil sequence. By covering >90 percent of the known coiled-coil structures, LOGICOIL is a net improvement compared with other existing methods, which achieve a predictive coverage of around 31 percent of this population. As such, LOGICOIL is particularly useful for researchers looking to characterize novel coiled-coil sequences or studying coiled-coil containing protein assemblies. It may also be used to assist in the structural characterization of synthetic coiled-coil sequences.

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Version

Install

install.packages('LOGICOIL')

Monthly Downloads

15

Version

0.99.0

License

GPL (>= 2)

Maintainer

Thomas L Vincent

Last Published

April 13th, 2014

Functions in LOGICOIL (0.99.0)

LOGICOIL

Predict oligomerization state of coiled-coil sequences.
plot_LOGICOIL

Plot the LOGICOIL scores
EstimateProbability

Estimate oligomeric state score at each position of the input coiled-coil sequence
Model_Parameters

Model parameters for the LOGICOIL prediction algorithm.
LOGICOIL-package

Predict oligomerization state of coiled-coil sequences.
LOGICOILfit

Fit of the multinomial log-linear model obtained from the LOGICOIL training dataset.
pssm

Profile scoring matrix derived from the LOGICOIL training set.