SpacePAC: Identification of Mutational Clusters in 3D Protein Space via Simulation.

Identifies clustering of somatic mutations in proteins via a simulation approach while considering the protein's tertiary structure.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("SpacePAC")
AuthorGregory Ryslik, Hongyu Zhao
Bioconductor views Clustering Proteomics
Date of publicationNone
MaintainerGregory Ryslik <gregory.ryslik@yale.edu>
LicenseGPL-2
Version1.14.0

View on Bioconductor

Files

DESCRIPTION
NAMESPACE
R
R/SpaceClust.R R/calc.Protein.Metrics.R R/calc.Sphere.Metrics.R R/create.Distance.Matrix.R R/create.Result.Matrix.R R/cull.Mutation.Matrix.R R/find.2Ball.Max.R R/find.3Ball.Max.R R/get.Avg.Neighbor.Distance.R R/get.Local.Radius.Results.R R/get.Mutated.Positions.R R/get.distance.R R/make.3D.Sphere.R R/simulate.Protein.R
build
build/vignette.rds
inst
inst/NEWS.Rd
inst/doc
inst/doc/SpacePAC.R
inst/doc/SpacePAC.Rnw
inst/doc/SpacePAC.pdf
inst/unitTests
inst/unitTests/test_SpaceClust.R
man
man/SpaceClust.Rd man/SpacePAC-package.Rd man/make.3D.Sphere.Rd
tests
tests/runTests.R
vignettes
vignettes/2ENQ-A.png
vignettes/Algorithm-Execution.pdf
vignettes/Algorithm-Table.pdf
vignettes/FinalStatisticDiagram.pdf
vignettes/KRASRGL.png
vignettes/SpacePAC.Rnw
vignettes/refs.bib

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