A Spatial Model of Intra-Tumor Heterogeneity
Simulate bulk sampling
2D cross section of the simulated tumor
Create a linear chain graph to describe the order of mutations
Define the progression of mutations from an igraph object
Simulate multi-region bulk sampling
Simulate fine needle aspiration
Simulate single cell sequencing data
Spatial simulation of tumor growth
Simulate single cell sequencing data
Visualize and analyze intratumor heterogeneity using a spatial model o...
Quantify the spatial distribution of mutants
Interactive visualization of the simulated tumor
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.