Dendrogram: Dendrogram
In NormalizeMets: Analysis of Metabolomics Data

Description Usage Arguments Value Author(s) See Also Examples

Performs hierarchical cluster analysis given a distance measure and an agglomeration method, and produces a dendrogram.

Dendrogram(featuredata, groupdata, saveplot = FALSE,
  plotname = "dendrogram", savetype = c("png", "bmp", "jpeg", "tiff",
  "pdf"), distmethod = "manhattan", aggmethod = "ward.D",
  main = "Dendrogram", cex = 0.8, clust = FALSE, rect = FALSE,
  nclust = NULL, height = NULL, bordercol = 2, ...)

`featuredata`	A data frame in the featuredata format. This should have sample names in the first column to be read as row names and the metabolomics variables in the remaining columns.
`groupdata`	A data frame or a table with optional sample names in the first column to be read as row names and group names in the following column.
`saveplot`	A logical indication whether to save the dendrogram produced.
`plotname`	Name of the output file if the file is to be saved.
`savetype`	The required format for the plot to be saved in. Threre is a choice of `"png","bmp","jpeg","tiff","pdf"` type files.
`distmethod`	The distance measure to be used. This must be one of "`euclidean`", "`maximum`", "`manhattan`", "`canberra`", "`binary`" or "`minkowski`".
`aggmethod`	The agglomeration method to be used. This should be one of "`ward`", "`single`", "`complete`", "`average`", #ward -> ward.D "`mcquitty`", "`median`" or "`centroid`".
`main`	Plot title.
`cex`	A numerical value giving the amount by which plotting text and symbols should be magnified relative to the default.
`clust`	A logical indicating whether the results from heirarchical clustering should be grouped
`rect`	A logical indicatng whether rectanges should be drawn highlighting the groups from clust above
`nclust`	The desired number of clusters for clust or rect.
`height`	The desifed height to obtain clusters for clust or rect. Either nclust or height must be supplied for clust or rect.
`bordercol`	If rect=TRUE, a vector with border colors for the rectangles.
`...`	Arguments to be passed on to other methods.