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automate pvalue calculation in VariantSpark pipeline #201

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natwine opened this issue Sep 2, 2021 · 0 comments · Fixed by #208
Closed

automate pvalue calculation in VariantSpark pipeline #201

natwine opened this issue Sep 2, 2021 · 0 comments · Fixed by #208
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@natwine
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natwine commented Sep 2, 2021

Implement the pvalue function into variantspark pipeline once the methodology and R scripts are completed by Rob Dunne.
Get feedback from key users (letitia, priya on most user friendly approach to integration). Piotr's current suggestion: output the table of variants in HAIL notebook to include column with counts for how many time a variant has split a tree. use that as input to separate function to plot distribution, with options of which distribution to fit, followed by pvalue result with user input of fdr threshold

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