procoil: Prediction of Oligomerization of Coiled Coil Proteins

The package allows for predicting whether a coiled coil sequence (amino acid sequence plus heptad register) is more likely to form a dimer or more likely to form a trimer. Additionally to the prediction itself, a prediction profile is computed which allows for determining the strengths to which the individual residues are indicative for either class. Prediction profiles can also be visualized as curves or heatmaps.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("procoil")
AuthorUlrich Bodenhofer
Bioconductor views Classification Proteomics SupportVectorMachine
Date of publicationNone
MaintainerUlrich Bodenhofer <bodenhofer@bioinf.jku.at>
LicenseGPL (>= 2)
Version2.2.0
http://www.bioinf.jku.at/software/procoil/

View on Bioconductor

Functions

baselines.CCProfile Man page
baselines,CCProfile-method Man page
CCModel Man page
CCModel-class Man page
CCModel-FileOps Man page
CCProfile Man page
CCProfile-class Man page
[,CCProfile,index,ANY,ANY-method Man page
fitted.CCProfile Man page
fitted,CCProfile-method Man page
heatmap.CCProfile Man page
heatmap,CCProfile,missing-method Man page
plot Man page
plot.CCProfile Man page
plot,CCProfile,missing-method Man page
plot-methods Man page
predict Man page
predict.CCModel Man page
predict,CCModel-method Man page
predict-methods Man page
procoil Man page
PrOCoilModel Man page
PrOCoilModelBA Man page
procoil-package Man page
profile.CCProfile Man page
profile,CCProfile-method Man page
profiles.CCProfile Man page
profiles,CCProfile-method Man page
readCCModel Man page
sequences.CCProfile Man page
sequences,CCProfile-method Man page
show.CCModel Man page
show,CCModel-method Man page
show.CCProfile Man page
show,CCProfile-method Man page
weights.CCModel Man page
weights,CCModel-method Man page
writeCCModel Man page

Files

DESCRIPTION
NAMESPACE
R
R/AllClasses.R R/access-methods.R R/fitted-methods.R R/heatmap-methods.R R/plot-methods.R R/predict-methods.R R/profile-methods.R R/readCCModel.R R/show-methods.R R/weights-methods.R R/writeCCModel.R
build
build/vignette.rds
data
data/PrOCoilModel.RData
data/PrOCoilModelBA.RData
inst
inst/CITATION
inst/NEWS
inst/doc
inst/doc/procoil.R
inst/doc/procoil.Rnw
inst/doc/procoil.pdf
inst/examples
inst/examples/testModel.CCModel
man
man/CCModel-FileOps.Rd man/CCModel-class.Rd man/CCProfile-class.Rd man/plot-methods.Rd man/predict-methods.Rd man/procoil-package.Rd
vignettes
vignettes/GCN4output.png
vignettes/Input.png
vignettes/JKU_EN_noName.pdf
vignettes/Marcoil.png
vignettes/MarcoilOut.png
vignettes/MarcoilPreProc.png
vignettes/MarcoilPreProcOut.png
vignettes/MutationAnalysisInput.png
vignettes/MutationAnalysisOutput.png
vignettes/PairCoil2input.png
vignettes/PairCoil2output.png
vignettes/PairCoil2sel.png
vignettes/bioinf-article.txi
vignettes/bioinf-bar.png
vignettes/bioinf.cls
vignettes/procoil.Rnw

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.