dendsort: Modular Leaf Ordering Methods for Dendrogram Nodes

An implementation of functions to optimize ordering of nodes in a dendrogram, without affecting the meaning of the dendrogram. A dendrogram can be sorted based on the average distance of subtrees, or based on the smallest distance value. These sorting methods improve readability and interpretability of tree structure, especially for tasks such as comparison of different distance measures or linkage types and identification of tight clusters and outliers. As a result, it also introduces more meaningful reordering for a coupled heatmap visualization.

AuthorRyo Sakai
Date of publication2015-12-14 12:39:17
MaintainerRyo Sakai <ryo@vda-lab.be>
LicenseGPL-2 | GPL-3
Version0.3.3
https://bitbucket.org/vda-lab/dendsort/, http://f1000research.com/articles/3-177/v1

View on CRAN

Files

dendsort
dendsort/inst
dendsort/inst/tests
dendsort/inst/tests/test-dendsort.R
dendsort/inst/tests/test-sort_average_r.R
dendsort/inst/tests/test-sort_average.R
dendsort/inst/tests/test-sort_smallest.R
dendsort/inst/tests/test-sort_smallest_r.R
dendsort/inst/doc
dendsort/inst/doc/example_figures.R
dendsort/inst/doc/example_figures.Rmd
dendsort/inst/doc/example_figures.html
dendsort/NAMESPACE
dendsort/data
dendsort/data/sample_tcga.rda
dendsort/R
dendsort/R/sort_average.R dendsort/R/cal_length.R dendsort/R/dendsort-package.R dendsort/R/cal_total_length.R dendsort/R/dendsort.R dendsort/R/sort_smallest.R dendsort/R/sort_average_r.R dendsort/R/cal_node_limit.R dendsort/R/sort_smallest_r.R
dendsort/vignettes
dendsort/vignettes/example_figures.Rmd
dendsort/MD5
dendsort/build
dendsort/build/vignette.rds
dendsort/DESCRIPTION
dendsort/man
dendsort/man/cal_length.Rd dendsort/man/dendsort.Rd dendsort/man/sort_average.Rd dendsort/man/dendsort-package.Rd dendsort/man/sample_tcga.Rd dendsort/man/cal_node_limit.Rd dendsort/man/sort_smallest.Rd dendsort/man/cal_total_length.Rd dendsort/man/sort_smallest_r.Rd dendsort/man/sort_average_r.Rd

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