To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("clustComp")
In most cases, you don't need to download the package archive at all.
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Bioconductor version: Release (3.4)
clustComp is a package that implements several techniques for the comparison and visualisation of relationships between different clustering results, either flat versus flat or hierarchical versus flat. These relationships among clusters are displayed using a weighted bi-graph, in which the nodes represent the clusters and the edges connect pairs of nodes with non-empty intersection; the weight of each edge is the number of elements in that intersection and is displayed through the edge thickness. The best layout of the bi-graph is provided by the barycentre algorithm, which minimises the weighted number of crossings. In the case of comparing a hierarchical and a non-hierarchical clustering, the dendrogram is pruned at different heights, selected by exploring the tree by depth-first search, starting at the root. Branches are decided to be split according to the value of a scoring function, that can be based either on the aesthetics of the bi-graph or on the mutual information between the hierarchical and the flat clusterings. A mapping between groups of clusters from each side is constructed with a greedy algorithm, and can be additionally visualised.
Author: Aurora Torrente and Alvis Brazma.
Maintainer: Aurora Torrente <aurora at ebi.ac.uk>
Citation (from within R,
enter citation("clustComp")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("clustComp")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("clustComp")
R Script | The clustComp Package | |
Reference Manual | ||
Text | NEWS |
biocViews | Clustering, GeneExpression, Software, Visualization |
Version | 1.2.2 |
In Bioconductor since | BioC 3.3 (R-3.3) (1 year) |
License | GPL (>= 2) |
Depends | R (>= 3.3) |
Imports | sm, stats, graphics, grDevices |
LinkingTo | |
Suggests | Biobase, colonCA, RUnit, BiocGenerics |
SystemRequirements | |
Enhances | |
URL | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Package Source | clustComp_1.2.2.tar.gz |
Windows Binary | clustComp_1.2.2.zip |
Mac OS X 10.9 (Mavericks) | clustComp_1.2.2.tgz |
Subversion source | (username/password: readonly) |
Git source | https://github.com/Bioconductor-mirror/clustComp/tree/release-3.4 |
Package Short Url | http://bioconductor.org/packages/clustComp/ |
Package Downloads Report | Download Stats |
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