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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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index and plower in mt validation #341

Closed StefPN closed 10 years ago

StefPN commented 10 years ago

Hi, I was just wondering what the columns "index" and "plower" in the mt validation output table mean. I cannot find the description in the tutorial or demo. This is probably self-explanatory for statisticians but unfortunately not for me. Thanks a lot for your help! Cheers, Stef

joey711 commented 10 years ago

mt.minP is actually referenced in the phyloseq::mt documentation. see page 18 of The multtest package documentation, under the header Value which is the section of R documentation that describes the output. In this case it is an itemized list describing the different output fields, including plower.

Hope that helps. You'll have to do some additional reading to understand it fully. In general, though, you should be sticking with the FWER or FDR, though.

Cheers

joey