microbes: Test data of microbiome

In gramm4R: Generalized correlation analysis and model construction strategy for metabolome and microbiome

Description

The test data for examples at functionnaiveGramm, Gramm,nlfitGramm

Usage

data("microbes")

Format

The format is: Formal class 'SummarizedExperiment' [package "SummarizedExperiment"] with 5 slots ..@ colData :Formal class 'DataFrame' [package "S4Vectors"] with 6 slots .. .. ..@ rownames : chr [1:42] "B1" "B2" "B3" "B4" ... .. .. ..@ nrows : int 42 .. .. ..@ listData : Named list() .. .. ..@ elementType : chr "ANY" .. .. ..@ elementMetadata: NULL .. .. ..@ metadata : list() ..@ assays :Formal class 'SimpleAssays' [package "SummarizedExperiment"] with 1 slot .. .. ..@ data:Formal class 'SimpleList' [package "S4Vectors"] with 4 slots .. .. .. .. ..@ listData :List of 1 .. .. .. .. .. ..$ counts: num [1:85, 1:42] 1 1 13 2 4 8 11 24 6 1 ... .. .. .. .. .. .. ..- attr(*, "dimnames")=List of 2 .. .. .. .. .. .. .. ..$ : NULL .. .. .. .. .. .. .. ..$ : chr [1:42] "B1" "B2" "B3" "B4" ... .. .. .. .. ..@ elementType : chr "ANY" .. .. .. .. ..@ elementMetadata: NULL .. .. .. .. ..@ metadata : list() ..@ NAMES : NULL ..@ elementMetadata:Formal class 'DataFrame' [package "S4Vectors"] with 6 slots .. .. ..@ rownames : NULL .. .. ..@ nrows : int 85 .. .. ..@ listData :List of 1 .. .. .. ..$ X: Factor w/ 84 levels "[Ruminococcus] spp",..: 74 24 1 12 20 21 29 70 65 20 ... .. .. ..@ elementType : chr "ANY" .. .. ..@ elementMetadata: NULL .. .. ..@ metadata : list() ..@ metadata : list()

Examples

data(microbes)
## maybe str(microbes) ; plot(microbes) ...

gramm4R documentation built on Nov. 8, 2020, 5:41 p.m.