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genenetwork / genenetwork2

GeneNetwork (2nd generation)
http://gn2.genenetwork.org/
GNU Affero General Public License v3.0
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Set MAF default based on # samples #346

Closed zsloan closed 5 years ago

zsloan commented 5 years ago

Abe mentioned during the presentation that it might be a good idea to make the MAF 0.01 for situations with ~1000 samples. This is a pretty easy change to make, so I'll ask Rob about it.

robwwilliams commented 5 years ago

Sure. Default could be a function of n of traits with data.

On Mon, Nov 5, 2018 at 10:20 PM zsloan notifications@github.com wrote:

Abe mentioned during the presentation that it might be a good idea to make the MAF 0.01 for situations with ~1000 samples. This is a pretty easy change to make, so I'll ask Rob about it.

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zsloan commented 5 years ago

This change was made a while back, though the logic can still be made more complex if someone can decide upon a good formula to use (currently it just sets it to 0.01 for N>500 and 0.05 otherwise, but I don't want to make it more specific unless someone else signs off on it).

Anyways, closing this since the change mentioned in the issue was already made.