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CancerInSilico

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This is the development version of CancerInSilico; for the stable release version, see CancerInSilico.

An R interface for computational modeling of tumor progression


Bioconductor version: Development (3.19)

The CancerInSilico package provides an R interface for running mathematical models of tumor progresson and generating gene expression data from the results. 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

Maintainer: Thomas D. Sherman <tomsherman159 at gmail.com>, Elana J. Fertig <ejfertig at jhmi.edu>

Citation (from within R, enter citation("CancerInSilico")):

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("CancerInSilico")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF

Details

biocViews BiomedicalInformatics, CellBiology, GeneExpression, ImmunoOncology, MathematicalBiology, RNASeq, SingleCell, Software, SystemsBiology
Version 2.23.1
In Bioconductor since BioC 3.4 (R-3.3) (7.5 years)
License GPL-2
Depends R (>= 3.4), Rcpp
Imports methods, utils, graphics, stats
System Requirements
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Suggests testthat, knitr, rmarkdown, BiocStyle, Rtsne, viridis, rgl, gplots
Linking To Rcpp, BH
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package
Windows Binary CancerInSilico_2.23.1.zip
macOS Binary (x86_64) CancerInSilico_2.23.1.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/CancerInSilico
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CancerInSilico
Package Short Url https://bioconductor.org/packages/CancerInSilico/
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