biclustmember {biclust} | R Documentation |
Draws a membership graph cluster x columns
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)
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 |
Sebastian Kaiser sebastian.kaiser@stat.uni-muenchen.de
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.
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)