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poppr 2.9.0
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@zkamvar zkamvar released this 06 Feb 23:23
· 75 commits to main since this release
v.2.9.0
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poppr version 2.9.0

minor note: This release has all the same functionality as the one on CRAN, but I was being an absolute walnut and tagged it on the current main branch instead of the commit that was actually sent to CRAN (1a0aa1b), which contains minor fixes to valid URLs and, perhaps most importantly, the version properly recorded.

Thanks to @davefol, this release has a new function called bruvo.between(), which will use Bruvo's distance to compare a subset of data against a larger database. In addition the argument to drop populations from the analysis has been renamed to exclude.

Some important bug fixes include a fix for people who have SNP data that they wish to export to the GenAlEx format and a fix for Windows users who want to use bitwise.ia() for a large sample size.

NEW FEATURES

  • bruvo.between() will calculate bruvo's distances between a query dataset
    and a reference dataset (@davefol, #223)

DEPRECATION

  • The argument blacklist has been deprecated in favor of exclude for the
    following functions: bruvo.msn(), poppr.msn(), clonecorrect(), poppr(),
    mlg.table(), mlg.crosspop(), and popsub(). It will be removed in the
    poppr version 2.10 (@zkamvar, #218)

GITHUB

  • The default branch for the repository is now "main" (@zkamvar, #218)

BUG FIX

  • genind2genalex() no longer converts diploid sequence data to zeros on export
    This fixes #231 (@zkamvar, #233).
  • bitwise.ia() will no longer have integer overflows early on Windows
    (@zkamvar, #235)
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