binaryClust function

Cluster Matrix of Binary Censored Data

Performs clustering of a matrix of 0s and 1s, ie. the censoring indicator columns for multiple variables. If there are multiple detection limits within a column first convert the 0/1 designated to be Below vs Above the highest detection limit in the column. Detection limits may differ among columns.

binaryClust(dat.frame, method = "ward.D2", group = NULL, ncluster = NULL)

Arguments

• dat.frame: A data frame containing only the 0/1 columns, one column per chemical parameter.
• method: Method of forming clusters. The default is "ward.D2", which is appropriate for a variety of types of data. Another appropriate option is “average” – average distances between cluster centers. See the vegan package for other possible clustering methods.
• group: Optional grouping variable. If used, sites being clustered will be represented by their group name, rather than by the row number.
• ncluster: Optional number of clusters to be differentiated on the graph. Clusters are fenced off with rectangles.

Returns

Prints a cluster dendrogram based on clustering method

Examples

data(PbHeron)

# without group specified
binaryClust(PbHeron[,4:15])

# With Group argument
binaryClust(PbHeron[,4:15],group=PbHeron$DosageGroup)

References

Helsel, D.R., 2011. Statistics for Censored Environmental Data using Minitab and R, 2nd ed. John Wiley & Sons, USA, N.J.