KMC: K-Means/K-Medians

Parameter Information


Sample Selection

The sample selection option indicates whether to cluster genes or experiments.

Means/Medians option

The Means or Medians option indicates whether each cluster's centroid vector should be calculated a mean or a median of the member expression patterns.

Number of Clusters

This positive integer value indicates the number of clusters to be created. Note that FOM can be used to estimate an appropriate value.

Number of Iterations

This positive integer value is the maximum number of times that all the elements in the data set will be tested for cluster fit. On each iteration each element is associated with the cluster with the closest mean (or median).

Note that the algorithm will terminate when either no elements require migration (reassignment) to new clusters or when the maximum number of iterations has been reached.

Hierarchical Clustering

This check box selects whether to perform hierarchical clustering on the elements in each cluster created.