NEWS

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linkcomm 1.0-14 (2021-02-04)

• Fixed doi format in DESCRIPTION file.

linkcomm 1.0-13 (2020-10-06)

• Fixed return() parenthesis issue in getOCG.clusters() and read.OCG().
• Fixed getCommunityCentrality() and getClusterRelatedness() issues.
• Updated README; vignette PDF now static.

linkcomm 1.0-12 (2020-03-11)

• Fixed class inherits issues.

linkcomm 1.0-11 (2014-08-13)

• Fixed downwards-incompatibility issue related to the "ward.D" clustering method name change.

linkcomm 1.0-10 (2014-08-11)

• Attempted to fix file access error relating to Sparc Solaris system.

linkcomm 1.0-9 (2014-06-04)

• Improved efficiency of edge.duplicates() function.
• Fixed a small memory-usage bug in linkdensities.cpp.
• Fixed memory leaks in OCG_algorithm.c.

linkcomm 1.0-8 (2014-04-03)

• Fixed a clang-specific bug affecting the calculation of edge similarities.
• Added dynamicTreeCut package to the imports field.
• Added function "meta.communities" to hierarchically cluster link communities and automatically identify clusters using dynamicTreeCut.
• Added function "get.community.overlaps" to find communities that share nodes.
• Added function "get.shared.nodes" to extract the shared nodes between specific sets of communities.
• Updated the vignette.

linkcomm 1.0-7 (2013-05-29)

• Changed dependency from "igraph0" to "igraph".
• Added support for bi-partite networks to "getLinkCommunities".
• Added argument "use.all.edges" to "getLinkCommunities" to allow edge similarities to be calculated for all pairs of edges, not just those sharing a node.
• Added function "linkcomm2clustnsee" to enable the export of clusters to Cytoscape and the Clust&See plug-in.
• Added function "integer.edgelist" to enable conversion of networks into integer edgelists.
• Fixed a bug in "newLinkCommsAt" which prevented the $edges output from being modified.
• Added "fastcluster" to the Suggests field.
• Changed function "getLinkDensities" to "LinkDensities".

linkcomm 1.0-6 (2012-07-06)

• Improved memory usage during the calculation of link densities.
• Added "node.pies" argument to "plotLinkCommGraph" to enable the visualization of nodes as pie charts of edge community membership.
• Included "edge.duplicates" function that finds loops, duplicate and bi-directional edges using a C++ function.
• Added "dist" argument to "getLinkCommunities" to allow the user to specify their own distance matrix.
• Fixed a bug that prevented link dendrograms from rendering correctly when trivial clusters are included.
• Fixed a bug that that led to summary plots rendering incorrectly if plotted sequentially on the same graphics device.
• Modified "plotOCGraph" so that node labels overlay node symbols.
• Changed Windows progress indicators to percentages.
• Updated vignette documentation to highlight node pie plots.

linkcomm 1.0-5 (2012-06-01)

• Added functions "getOCG.clusters", "plot.OCG", "read.OCG", "print.OCG", "numberEdgesIn", and "which.communities" to enable a port of the Overlapping Cluster Generator (OCG) algorithm into the linkcomm package.
• Fixed a bug that prevented linkcomm summary plots from rendering correctly on different sized graphics devices.
• Updated the vignette documentation to include information on the OCG algorithm and how to use it.
• Changed dependency from "igraph" to "igraph0" to avoid incompatibilites, and included "utils" in the imported package list.

linkcomm 1.0-4 (2011-12-25)

• Added functions "getEdgesIn" and "graph.feature" and modified "getNodesIn" to allow customization of network visualizations.
• Added "verbose" option to "getLinkCommunities", "plotLinkCommDend", and "plotLinkCommSummary".
• Added "directed" logical component to the "linkcomm" object.
• Fixed a bug that led to loss of the partition density axis in "summary" plots.
• Fixed a bug that prevented the correct colouring of dendrograms when several clusters merge at the same height.
• Updated vignette and manual documentation.

linkcomm 1.0-3 (2011-07-23)

• Fixed bug that prevented partition density summary plots from being saved correctly as PDFs or other file types.
• Updated citation information.
• Updated documentation.

linkcomm 1.0-2 (2011-05-29)

• Fixed Windows-specific bug that prevented progress indicators from working.
• Included a start-up message about documentation, demos, and read-write directory permissions.
• Added a note about bidirectional edges in directed networks to the documentation for "getLinkCommunities".

linkcomm 1.0-1 (2011-04-30)

• Windows binaries released after fixing bugs related to file reading and writing.

linkcomm 1.0-0 (2011-04-27)

• Function-complete version of linkcomm uploaded onto CRAN.