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SITH: A Spatial Model of Intra-Tumor Heterogeneity

Implements a three-dimensional stochastic model of cancer growth and mutation similar to the one described in Waclaw et al. (2015) <doi:10.1038/nature14971>. Allows for interactive 3D visualizations of the simulated tumor. Provides a comprehensive summary of the spatial distribution of mutants within the tumor. Contains functions which create synthetic sequencing datasets from the generated tumor.

Version: 1.1.0
Depends: R (≥ 3.6.0)
Imports: Rcpp (≥ 1.0.4), scatterplot3d, stats, graphics, grDevices
LinkingTo: Rcpp
Suggests: rgl, igraph, knitr, rmarkdown, testthat
Published: 2021-01-05
DOI: 10.32614/CRAN.package.SITH
Author: Phillip B. Nicol
Maintainer: Phillip B. Nicol <philnicol740 at gmail.com>
BugReports: https://github.com/phillipnicol/SITH/issues
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
URL: https://github.com/phillipnicol/SITH
NeedsCompilation: yes
Materials: NEWS
CRAN checks: SITH results

Documentation:

Reference manual: SITH.pdf
Vignettes: Simulating spatial tumor growth with SITH

Downloads:

Package source: SITH_1.1.0.tar.gz
Windows binaries: r-devel: SITH_1.1.0.zip, r-release: SITH_1.1.0.zip, r-oldrel: SITH_1.1.0.zip
macOS binaries: r-release (arm64): SITH_1.1.0.tgz, r-oldrel (arm64): SITH_1.1.0.tgz, r-release (x86_64): SITH_1.1.0.tgz, r-oldrel (x86_64): SITH_1.1.0.tgz
Old sources: SITH archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=SITH to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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