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| ReorderCluster-package | optimal reordering of the hierarchical tree according to class labels |
| CalcMerge | Forms the binary vector to mark the nodes with identical class labels. |
| colorDendClass | Makes the plot of the dendrogram, visualizing the class label information with different colors of dendrogram edges. |
| funMerge | Recover the optimal sequence of leaves in the hierarchical tree according to available class labels. |
| leukemia | Real biological dataset to perform the analysis. |
| OrderingJoseph | Makes the calculation of the evaluation function for each subtree of the hierarchical tree using the dynamic programming approach |
| OrderingJosephC | Makes the calculation of the evaluation function for each subtree of the hierarchical tree using the dynamic programming approach (C++ version) |
| RearrangeData | Sample function to perform optimal reordering of the hierarchical tree according to class labels |
| RearrangeJoseph | Makes the initialization of auxiliary matrices and calls to sequence of functions to perform the reordering of the elements (leaves) of the hierarchical tree according to class labels of the data objects. |
| ReorderCluster | optimal reordering of the hierarchical tree according to class labels |
| SubTree | Simplifies the initial hierarchical tree by reducing the number of nodes. Constructs the new merging matrix with some inner nodes substituted by one element from the coressponding subtree. |
| testBar | For each node (subtree) of the hierarchical tree forms two vectors, consisting of elements of its left and write subtrees. |
| testData1 | Simulates the dataset for analysis. |
| testData2 | Simulates the dataset for analysis. |