This package provides individual based simulations in order to
simulate the accumulation of junctions over time, both for chromosomes
with a finite and an infinite number of recombination sites.
Furthermore, the package provides mathematical tools to verify the
outcomes of the individual based simulations.
version 2.1.1
- fixed typo in one of the examples
- cleaned up cpp code to comply with linting guidelines
- improved code coverage in tests
version 2.1.0
- updated tbb::task_scheduler_init to tbb::global_control
- improved linting of cpp code
- sped up tests
- added CITATION file
- added NEWS file
version 2.0.2
version 2.0
- merged many functions with similar functionality
- added vignette that provides overview of all functionality.
version 1.9
- added c++ versions of the unphased and phased likelihoods.
version 1.8
- added multithreading using the TBB / RcppParallel library.
version 1.7
- further improved the recombination function following Hanno
Hildenbrandt’s suggestions
version 1.6
- improved the recombination function to run twice as fast
version 1.5.1
- added option to track the true number of junctions
version 1.5
- added support for inferring the time since admixture based on phased
and unphased data.
- included simulation functions to simulate appropriate data
(e.g. phased and unphased).
version 1.4
- added support for estimating the number of junctions under a
backcrossing scheme
- added support for simulating the number of junctions under a
backcrossing scheme
- both based on the code supplied in Lavretsky et al. 2019.
version 1.3
- added support for estimating the time since admixture using unphased
data.
- added individual based simulations returning phased and unphased
data.
- Updated entire package to Roxygen.
version 1.2
- added support for estimating the expected number of junctions for
arbitrarily distributed markers.
version 1.1
- updated underlying random number generator for picking recombination
sites. The previous generator had limited precision, which could
generate duplicate recombination sites. This update fixes that.