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grenedalf v0.2.0
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@lczech lczech released this 21 Jun 01:35
· 159 commits to master since this release
v0.2.0
ffb5aa7

Preprint

This release accompanies our preprint

grenedalf: population genetic statistics for the next generation of pool sequencing.
Lucas Czech, Jeffrey P. Spence, Moisés Expósito-Alonso.
arXiv, 2023. arXiv:2306.11622

grenedalf is still very much in development, and a lot of things will further change, such as the command structure and option names. We are lacking documentation, and there are some known smaller issues. That will all be fixed in the near future. However, since its initial pre-release more than a year ago, a lot has changed and improved. We hence consider it workable enough. But still, please report any issues that you are having - grateful for your feedback!

Stay tuned for more!

Notable changes

A lot has happened since v0.1.0, but here is a very broad summary:

  • Add our novel asymptotically unbiased FST estimators
  • Add support for multiple file input, with union or intersection
  • Add support for generic frequency table files
  • Add different windowing approaches (regions, whole genome, etc)
  • Add a plethora of convenience options for filtering and subsetting
  • Add region filters (bed, gff, and other region file formats supported)
  • Rename, refine, and reorganize commands and options
  • Fix a lot of early teething troubles (setup, threading, minor bugs, etc)
Assets 2
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