jackalope 1.1.3 2021-07-06

  • Remove one NULL_ENTRY to support STRICT_R_HEADERS

jackalope 1.1.2 2021-02-10

  • Updated CITATION
  • Fixed some links in docs
  • Fixed unnecessary copying in HapSet class

jackalope 1.1.1 2020-06-15

jackalope 1.1.0 2020-02-28

  • Fixed bug when scaling tree using theta parameter.
  • Using “haplotypes” instead of “variants” throughout.
  • Updated R6 class documentation for new roxygen2 methods.
  • Provide method to merge >1 chromosomes, but not the whole genome

jackalope 1.0.0 2019-11-22

  • create_variants performs better with high mutation rates
  • Substitutions now use a random-site, discrete-Gamma model for among-site variability (optionally with invariant sites), rather than a fixed-sites model
  • No longer depends on vcfR package, instead using htslib for reading VCF files
  • Indel creation now uses “tau-leaping” approximation to the Doob-Gillespie algorithm
  • Substitutions are added by calculating transition-probability matrices and sampling for substitutions at each site