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grenedalf v0.4.0
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@lczech lczech released this 31 May 16:25
· 71 commits to master since this release
v0.4.0
597b75c

This release contains a major redesign of the data filtering approach, which now allows to properly compute window averages of the statistics, and improves the behavior of the SNP queue window approach. It furthermore contains several refinements of the statistics, and offers more options than before. Some options have been renamed to fit with the new functionality.

ATTENTION: We accidentally introduced a statistical mistake in the window averaging of FST that slipped our attention. Use grenedalf v0.5.0 or any later version instead.

Notable Changes

  • Add several window averaging policies for statistics
  • Add refined Tajima's D denominator policies
  • Add fst cathedral plot commands
  • Refine sync command with gsync, header, and masked annotation
  • Add sample group merging option
  • Add options to provide a genome mask file
  • Add re-scaling and re-sampling functions for samples
  • Rename sliding window option into interval window
  • Rename "coverage" to "read depth" throughout the documentation
  • Add more general documentation
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