R: Bicluster Membership Graph

biclustmember {biclust} | R Documentation

## Bicluster Membership Graph

### Description

Draws a membership graph cluster x columns

### Usage

    biclustmember(bicResult, x, mid = T, cl_label = "", which=NA,
      main = "BiCluster Membership Graph", xlab="Cluster",
      color=diverge_hcl(101, h = c(0, 130)), ...)

    clustmember(res, x, mid = T, cl_label = "", which=NA,
      main = "Cluster Membership Graph", xlab="Cluster",
      color=diverge_hcl(101, h = c(0, 130)), ...)

    bicorder(bicResult, cols=TRUE, rev=FALSE)

### Arguments

`x` | The data matrix
`bicResult` | BiclustResult object with a bicluster result set.
`res` | Cluster Result (is converted into a kcca object)
`mid` | If TRUE, shows the value of the remaining objects inside the cluster value, else shows both aside each other.
`cl_label` | Ticks of x-axis
`which` | If specified gives the ploting order of the columns from bottom to top
`main` | Gives the title of the plot
`xlab` | Label of x-axis
`color` | Range of colors for the plot
`...` | Additional plot options or if neccessary option for as.kcca
`cols` | If TRUE orders the column by appearance in the bicluster, else orders the rows.
`rev` | If TRUE reverses the order

### Author(s)

Sebastian Kaiser sebastian.kaiser@stat.uni-muenchen.de

### See Also

`bubbleplot` for simultaneous representation of biclusters, `parallelCoordinates`for single representation of biclusters as lines of gene or condition profiles, `drawHeatmap`for Heatmap representation of biclusters and `biclustbarchart` for a barchart.

### Examples

      set.seed(1)
      x=matrix(rnorm(900),30,30)
      x[1:5,1:5]=rnorm(25,3,0.3)
      x[11:15,11:15]=rnorm(25,-3,0.3)
      x[21:25,21:25]=rnorm(25,6,0.3)
      colnames(x)<-paste("Var.",1:30)
      bics <- biclust(x,BCPlaid(), back.fit = 2, shuffle = 3, fit.model = ~m + a + b,
      iter.startup = 5, iter.layer = 30,  verbose = TRUE)

      biclustmember(bics,x)

      ord<-bicorder(bics, cols=TRUE, rev=TRUE)

      biclustmember(bics,x,which=ord)

[Package biclust version 2.0.2 Index]