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adding a square root transformation #243

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sydneyg opened this Issue Jul 12, 2017 · 4 comments

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@sydneyg @jarioksa @Microbiology
@sydneyg

sydneyg commented Jul 12, 2017 • edited

Hi @Microbiology can you please add a capability to do a square root transformation of the median/mean of the subsampled OTU tables prior to making the Bray-Curtis distance Matrix?

Thanks for this function! It looks awesome! This is for the avgdist.Rd function

@gavinsimpson gavinsimpson referenced this issue Jul 12, 2017

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Switch to median instead of mean #242

@jarioksa
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jarioksa commented Jul 13, 2017

The same comment as for issue #242: the avgdist function does not find median/mean of subsampled OTU tables, but mean of dissimilarities.

@jarioksa jarioksa added the feature-request label Jul 13, 2017

@sydneyg

sydneyg commented Jul 13, 2017

Thank you Jari, that is correct. I want to find the median of the dissimilarity matrices rather than the mean of them.

@Microbiology Microbiology referenced this issue Jul 29, 2017

Merged

Transformation and Median for `avgdist` #244

@Microbiology
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Microbiology commented Jul 29, 2017

I added this functionality and included it in a pull request.
@jarioksa
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jarioksa commented Aug 7, 2017

Closed with PR #244

@jarioksa jarioksa closed this Aug 7, 2017

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