SITH: An R package for visualizing and analyzing a spatial model of intratumor heterogeneity.

ABSTRACT: Cancer progression, including the development of intratumor heterogeneity, is inherently a spatial process. Mathematical models of tumor evolution may be a useful starting point for understanding the patterns of heterogeneity that can emerge in the presence of spatial growth. A commonly studied spatial growth model assumes that tumor cells occupy sites on a lattice and replicate into neighboring sites. Our R package SITH provides a convenient interface for exploring this model. Our efficient simulation algorithm allows for users to generate 3D tumors with millions of cells in under a minute. For visualizing the distribution of mutations throughout the tumor, SITH provides interactive graphics and summary plots. Additionally, SITH can produce synthetic bulk and single-c

SUBMITTER: Nicol PB 

PROVIDER: S-EPMC9374116 | biostudies-literature | 2022 Jun

REPOSITORIES: biostudies-literature