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joey711 / phyloseq

phyloseq is a set of classes, wrappers, and tools (in R) to make it easier to import, store, and analyze phylogenetic sequencing data; and to reproducibly share that data and analysis with others. See the phyloseq front page:
http://joey711.github.io/phyloseq/
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Expand multiple testing wrapper to include other corrections (FDR) #59

Closed joey711 closed 10 years ago

joey711 commented 12 years ago

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().

joey711 commented 12 years ago

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

https://github.com/joey711/phyloseq/commit/2cae7dc0afc84d92dc2786592be57a4fa88c6109

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

joey711 commented 11 years ago

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

joey711 commented 10 years ago

Done.

https://github.com/joey711/phyloseq/pull/348