Clusters the data either based on the raw data values or any MDS data type and adds the grouping into the annotation table.
dataObj |
the BioData object |
clusterby |
cluster on raw data or MDS clustered data default="raw" |
useGrouping |
do nothing and simply use tis grouping default=NULL |
groups.n |
how many groups should be detected default= 3 |
ctype |
cluster type - either 'hierarchical clust' or 'kmeans' default = 'hierarchical clust' |
onwhat |
this option has been kept for the Fluidigm data as there FACS data can also be used default = 'Expression' |
cmethod |
the method to used with the hclust clustering (default = 'ward.D2') |
name |
the name for the new grouping (default = 'auto_clusters_gene.1:n') |
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