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Expand multiple testing wrapper to include other corrections (FDR) #59

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joey711 opened this issue Jan 16, 2012 · 3 comments
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Expand multiple testing wrapper to include other corrections (FDR) #59

joey711 opened this issue Jan 16, 2012 · 3 comments
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joey711 commented Jan 16, 2012

There are additional tools for multiple testing beyond the FWER result obtained via mt.minP/mt.maxT wrapper "mt()".

Should probably just expand mt() so that it has additional options/defaults that can include FDR-related multiple testing. Dig further into the multtest package and extend some of these functions to phyloseq via mt().
@ghost ghost assigned joey711 Jan 16, 2012
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joey711 commented Feb 20, 2012

The following commit for v0.99.21 makes multi-class tests possible, which is a small incremental expansion.

2cae7dc

The additional expansion for other types of multiple-inference correction are pending.

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joey711 commented Feb 11, 2013

Have versions of this. Just need to implement. Should do this soon.

joey711 added a commit that referenced this issue May 24, 2014
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1.9.8 mt includes other corrections, FDR default
5a9c7ed 
CHANGES IN VERSION 1.9.8
-------------------------

USER-VISIBLE CHANGES

	- `mt` includes other corrections, FDR by default.

	- Resolves [Issue 59](#59)
joey711 added a commit that referenced this issue May 24, 2014
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Merge pull request #348 from joey711/ggplot2v100-bugfix
35916f6 
1.9.8 ggplot2 1.0.0 bugfix, mt enhancement

CHANGES IN VERSION 1.9.8
-------------------------

USER-VISIBLE CHANGES

	- `mt` includes other corrections, FDR by default.

	- Resolves [Issue 59](#59)

CHANGES IN VERSION 1.9.7
-------------------------

BUG FIXES

	- Now requires ggplot2 version 1.0.0

	- Fixes bug in which ggplot 1.0 breaks in a phyloseq vignette 

	- Resolves [Issue 347](#347)
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joey711 commented May 24, 2014

Done.

#348

@joey711 joey711 closed this as completed May 24, 2014
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