Meta data defining parameters of K2Taxonomer run

Retrieve or assign meta data variables.

K2meta(K2res)

K2meta(K2res) <- value

# S4 method for K2
K2meta(K2res)

# S4 method for K2
K2meta(K2res) <- value

Arguments

K2res	K2 class object.
value	Named list. Parameters used in K2Taxonomer run.

Value

Named list. Parameters used in K2Taxonomer run.

Examples

data(K2res)
K2meta(K2res)
#> $cohorts
#> NULL
#> 
#> $vehicle
#> NULL
#> 
#> $covariates
#> NULL
#> 
#> $block
#> NULL
#> 
#> $logCounts
#> [1] TRUE
#> 
#> $infoClass
#> NULL
#> 
#> $use
#> [1] "Z"
#> 
#> $nFeats
#> Features 
#> 22.36068 
#> 
#> $featMetric
#> [1] "mad"
#> 
#> $recalcDataMatrix
#> [1] FALSE
#> 
#> $nBoots
#> [1] 500
#> 
#> $clustFunc
#> function (dataMatrix, clustList) 
#> {
#>     if (length(clustList) == 0) {
#>         clustList <- list(aggMethod = "ward.D2", distMetric = "euclidean")
#>     }
#>     dDist <- dist(t(dataMatrix), method = clustList$distMetric)
#>     dClust <- hclust(dDist, method = clustList$aggMethod)
#>     modVec <- as.character(cutree(dClust, k = 2))
#>     mods <- paste(modVec, collapse = "")
#>     return(mods)
#> }
#> <bytecode: 0x7fbd66477040>
#> <environment: namespace:K2Taxonomer>
#> 
#> $clustCors
#> [1] 1
#> 
#> $clustList
#> list()
#> 
#> $linkage
#> [1] "mcquitty"
#> 
#> $qthresh
#> [1] 0.1
#> 
#> $cthresh
#> [1] 0
#> 
#> $ntotal
#> [1] 20000
#> 
#> $ssGSEAalg
#> [1] "gsva"
#> 
#> $ssGSEAcores
#> [1] 1
#> 
#> $oneoff
#> [1] TRUE
#> 
#> $stabThresh
#> [1] 0.5
#>