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
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-devel-UCRT: 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-release (x86_64): SITH_1.1.0.tgz, r-oldrel: SITH_1.1.0.tgz
Old sources: SITH archive

Linking:

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