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MD-Anderson-Bioinformatics / NG-CHM_GUI_BUILDER

Simple graphical builder for Next-Generation Clustered Heat Maps
GNU General Public License v2.0
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No "centroid linkage" agglomeration method available for hierarchical clustering #75

Open monikaramos opened 1 year ago

monikaramos commented 1 year ago

Hi there,

In the documentation for using the NGCHM builder, it states: "Agglomeration Method This is applicable only when rows are ordered by hierarchical clustering and describes the algorithm used for clustering. The currently supported methods are: Average Linkage, Complete Linkage, Single Linkage, Ward, Mcquitty, Median, or Centroid."

However, the actual builder doesn't have centroid linkage as an agglomeration option. Can this be added?

Thank you!

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marohrdanz commented 7 months ago

Hi @monikaramos. Sorry for the documentation confusion and the very late response.

The R package (this repo) supports these methods (because it uses stats::hclust()), but unfortunately we don't have immediate plans to add these features to the GUI builder. We've updated the documentation to be more clear.

Are you able to use the R package to build your NG-CHMs?