getMergeGroupRows

list of starting group membership (input to hierBipartite())

groups

list of merged groups thus far (groupMerge[[3]] is a
vector of group names from cluster created at third merge)

groupMerges

Given index from hclust merge matrix, return X, Y row indices
corresponding to groups specified by index

internal

Bipartite graph-based hierarchical clustering, developed for pharmacogenomic
datasets and datasets sharing the same data structure. The goal is to
construct a hierarchical clustering of groups of samples based on
association patterns between two sets of variables. In the context of
pharmacogenomic datasets, the samples are cell lines, and the two sets of
variables are typically expression levels and drug sensitivity values.
For this method, sparse canonical correlation analysis from
Lee, W., Lee, D., Lee, Y. and Pawitan, Y. (2011) <doi:10.2202/1544-6115.1638>
is first applied to extract association patterns for each group of samples.
Then, a nuclear norm-based dissimilarity measure is used to construct a
dissimilarity matrix between groups based on the extracted associations.
Finally, hierarchical clustering is applied.

Calvin Chi

getMergeGroupRows: Given index from hclust merge matrix, return X, Y row indices corresponding to groups specified by index

Description

Usage

Arguments

Value