CancerInSilico: An R interface for computational modeling of tumor progression

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The CancerInSilico package provides an R interface for running mathematical models of tumor progresson. This package has the underlying models implemented in C++ and the output and analysis features implemented in R.

Author
Thomas D. Sherman, Raymond Cheng, Elana J. Fertig
Date of publication
None
Maintainer
Thomas D. Sherman <tsherma4@jhu.edu>, Elana J. Fertig <ejfertig@jhmi.edu>
License
GPL (>= 2)
Version
1.0.0

View on Bioconductor

Man pages

CancerInSilico
CancerInSilico
CellModel-class
CellModel
getAxisAngle
'getAxisAngle' get the axis angle of each cell
getAxisLength
'getAxisLength' get the axis length of each cell
getCoordinates
'getCoordinates' get a two dimensional matrix of all the cell...
getCycleLengths
'getCycleLengths' return the cycle lengths of each cells at...
getDensity
'getDensity' gets the density of cells at a given time
getGrowthRates
'getGrowthRates' get the model growth rates of each cell
getNumberOfCells
'getNumberOfCells' get the number of cells alive
getParameters
'getParameters' get a named list of parameters in the model
getRadii
'getRadii' get the radius of each cell
interactivePlot
'interactivePlot' plots a CellModel and allows the user to...
plotCells
'plotCell' plots a CellModel at a given time
runCancerSim
'runCancerSim' runs a cell-based model of cancer
runDrasdoHohme
'runDrasdoHohme' runs the model based on Drasdo and Hohme...
show-CellModel-method
'show' display summary of CellModel class
timeToRow
'timeToRow' return the correct row in the mCells list...

Files in this package

CancerInSilico/.travis.yml
CancerInSilico/DESCRIPTION
CancerInSilico/LICENSE
CancerInSilico/NAMESPACE
CancerInSilico/R
CancerInSilico/R/CancerModels.R
CancerInSilico/R/CellModel-class.R
CancerInSilico/R/RcppExports.R
CancerInSilico/R/package.R
CancerInSilico/appveyor.yml
CancerInSilico/build
CancerInSilico/build/vignette.rds
CancerInSilico/inst
CancerInSilico/inst/NEWS
CancerInSilico/inst/doc
CancerInSilico/inst/doc/CancerInSilico.R
CancerInSilico/inst/doc/CancerInSilico.Rmd
CancerInSilico/inst/doc/CancerInSilico.html
CancerInSilico/man
CancerInSilico/man/CancerInSilico.Rd
CancerInSilico/man/CellModel-class.Rd
CancerInSilico/man/getAxisAngle.Rd
CancerInSilico/man/getAxisLength.Rd
CancerInSilico/man/getCoordinates.Rd
CancerInSilico/man/getCycleLengths.Rd
CancerInSilico/man/getDensity.Rd
CancerInSilico/man/getGrowthRates.Rd
CancerInSilico/man/getNumberOfCells.Rd
CancerInSilico/man/getParameters.Rd
CancerInSilico/man/getRadii.Rd
CancerInSilico/man/interactivePlot.Rd
CancerInSilico/man/plotCells.Rd
CancerInSilico/man/runCancerSim.Rd
CancerInSilico/man/runDrasdoHohme.Rd
CancerInSilico/man/show-CellModel-method.Rd
CancerInSilico/man/timeToRow.Rd
CancerInSilico/src
CancerInSilico/src/Cell.cpp
CancerInSilico/src/Cell.h
CancerInSilico/src/CellModel.cpp
CancerInSilico/src/CellPopulation.cpp
CancerInSilico/src/CellPopulation.h
CancerInSilico/src/ExceptionHandling.h
CancerInSilico/src/Parameters.cpp
CancerInSilico/src/Parameters.h
CancerInSilico/src/Point.h
CancerInSilico/src/RcppExports.cpp
CancerInSilico/src/Simulation.cpp
CancerInSilico/src/Simulation.h
CancerInSilico/src/SpatialHash.h
CancerInSilico/src/test-Cell.cpp
CancerInSilico/src/test-CellPopulation.cpp
CancerInSilico/src/test-Parameters.cpp
CancerInSilico/src/test-SpatialHash.cpp
CancerInSilico/src/test-runner.cpp
CancerInSilico/tests
CancerInSilico/tests/testthat
CancerInSilico/tests/testthat.R
CancerInSilico/tests/testthat/test-cpp.R
CancerInSilico/tests/testthat/test_Model.R
CancerInSilico/vignettes
CancerInSilico/vignettes/CancerInSilico.Rmd
CancerInSilico/vignettes/ExampleRun.png
CancerInSilico/vignettes/References.bib