SITH 1.1.0

This update introduces new functionality for the tumor growth simulator.

New functionality:

• A new parameter to simulateTumor() has been added. This allows the user to specify a custom disease model for more control over the kinds of mutations that can occur. See vignette for more details.
• Coverage has been added to bulkSample() and randomBulkSamples() to better simulate real sequencing data.

Changes to existing functionality:

• The alleles data frame which was returned by simulateTumor() has been renamed to genotypes to be biologically correct.

Bug fixes:

• In visualizeTumor, there was an issue where suggested package rgl was not being used conditionally.

Internal changes:

• The C++ code has been completely refactored for organization.

SITH 1.0.1

July 1, 2020

This patch contains bug fixes. In addition, the dependence on R 4.0.0 is switched to 3.6.0, so that users on the old release can use the package.

Bug fixes:

• An ambiguous call to the overloaded pow() in "post_processing.h" causes a compilation error on Solaris.

SITH 1.0.0

June 29, 2020

Initial CRAN release.