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leiden 0.4.3.1

Bug fix to avoid archive when dependencies are updated.

  • corrects mismatched chunk delimiters in documentation

Resolves: yihui/knitr#2057 yihui/knitr#2306

leiden 0.4.3

Minor update to pass CRAN checks

  • removed deprecated method to create sparse matrices

  • correct links in citations and vignettes

leiden 0.4.2

  • migrates bug fixes to conda environment and limit on total cells to refactored package

  • allows calling igraph::community_leiden for supported parameters (requires igraph v1.2.7 or later)

  • automatically calls native R version of leiden rather than Python to improve performance

  • updates vignettes and unit tests to ensure consistent results with past versions

leiden 0.4.1

  • migrates changes to retain on CRAN to leiden 0.4.0 (alpha)

leiden 0.4.0

  • migrate to calling community_leiden in igraph

  • updates the benchmarking vignette to compare performance to legacy versions using reticulate

leiden 0.3.10

  • removes limitation on number of cells (disables scientific notation within function call): resolves #12

  • resolves conflict between base and r-reticulate conda environments on loading: resolves #20

  • updates conda environment in interactive sessions only for compliance to CRAN checks

  • resolves formatting error in Rmarkdown vignettes (yihui/knitr#2057)

  • update testing for bipartite graphs for compatibility with newer version

leiden 0.3.9

Updates maintainer contact details.

leiden 0.3.8

  • bug fixes for vignettes to retain on CRAN

leiden 0.3.7

  • remove cairo graphics from vignette to retain on CRAN

leiden 0.3.6

  • add methods for multiplex community detection from a list of graphs (requires leidenalg 0.7.1)

  • add support for maximum community size (depends on leidenalg 0.8.2), if available

leiden 0.3.5

  • background changes to build vignettes on CRAN

leiden 0.3.4

  • add support for bipartite graphs (requires leidenalg 0.6.1 or later)

  • changes to install python leidenalg from vtraag channel on Windows

  • bug fixes to install documentation

  • improve automated conda configuration in background on loading library

  • optionally derive edge weights from the Laplacian matrix

leiden 0.3.3

  • bug fixes for documentation in response to changes to R

see development version: https://bugs.r-project.org/bugzilla/show_bug.cgi?id=16223

leiden 0.3.2

  • added support for passing weighted igraph objects

  • improved handling of sparse matrices

  • bug fixes to ensure same results from matrix and igraph methods

leiden 0.3.1

  • method for sparse matrices that passes to igraph without casting to dense

  • added seed and n_iterations to find_partitions

leiden 0.3.0

  • Implements calling leiden directly on an igraph object

  • Separate methods for igraph objects and adjacency matrices

  • Support for sparse matrices

  • Benchmarking added to vignettes

leiden 0.2.3

  • Adds passing weighted adjacency matrices to derive weight parameters

leiden 0.2.2

  • Changes to ensure compatibility with CRAN. Updates to vignettes and documentation.

leiden 0.2.1

  • Enable passing arguments to Python functions: initial_membership, weights, and node_sizes.

leiden 0.2.0

  • Adds passing arguments to the Python implementation: the partition_type and resolution_parameter. Runs the RBConfigurationVertexPartition by default (which is equivalent to ModularityVertexPartition with a resolution_parameter of 1).

leiden 0.1.1

  • Removes dependancy on igraph R package and avoids writing to disk (compatible with CRAN). Passes adjacency matrix directly to python as a numpy array.

leiden 0.1.0

  • Implements the Leiden algorithm in R by calling the leidenalg python library. Runs ModularityVertexPartition with defaults.