nodeSub-package: Package providing functions to simulate sequences under...

In thijsjanzen/nodeSub: Simulate DNA Alignments Using Node Substitutions

Package providing functions to simulate sequences under different DNA evolution models

Description

Simulate DNA sequences for the node substitution model. In the node substitution model, substitutions accumulate additionally during a speciation event, providing a potential mechanistic explanation for substitution rate variation. This package provides tools to simulate such a process, simulate a reference process with only substitutions along the branches, and provides tools to infer phylogenies from alignments. More information can be found in Janzen (2021) <doi:10.1093/sysbio/syab085>.

Version History:
Version 1.2.7 - Removed beta calculation due to apTreeshape removal from CRAN
Version 1.2.3 - Removed summary statistic tests for CRAN
Version 1.2.2 - Changed codedov links in README
Version 1.2.1 - Expanded depenency on RPANDA
Version 1.2 - Release on CRAN

Author(s)

Thijs Janzen Maintainer: Thijs Janzen <[e-mail]>

References

Thijs Janzen, Folmer Bokma, Rampal S Etienne, Nucleotide Substitutions during Speciation may Explain Substitution Rate Variation, Systematic Biology, 2021; syab085

thijsjanzen/nodeSub documentation built on Nov. 15, 2023, 2:44 p.m.