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Calculate marker Fst#59

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standage merged 18 commits intomasterfrom
calcfst
Jun 23, 2020
Merged

Calculate marker Fst#59
standage merged 18 commits intomasterfrom
calcfst

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@standage standage commented Jun 4, 2020

This update adds a new script to the dbbuild that uses genotype data from the 1000 Genomes Project to calculate per-marker FST values over 26 global populations.

FYI @rnmitchell

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codecov-commenter commented Jun 4, 2020

Codecov Report

Merging #59 into master will not change coverage.
The diff coverage is n/a.

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@@            Coverage Diff            @@
##            master       #59   +/-   ##
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  Coverage   100.00%   100.00%           
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  Files            8         8           
  Lines          210       210           
  Branches        31        31           
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  Hits           210       210           

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Fst values have not yet been merged into the core database in this update.

@standage standage marked this pull request as ready for review June 23, 2020 18:02
@standage standage merged commit d3ac9c4 into master Jun 23, 2020
@standage standage deleted the calcfst branch June 23, 2020 18:04
standage pushed a commit that referenced this pull request Sep 11, 2024
This update includes the results from a recent re-run of the USA8k Snakemake workflow, with the following changes.

- 150k reads simulated per sample rather than 250k reads
- new 50-microhap USA panel (see #56)
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