Recent Releases of leiden
leiden - leiden 0.4.3.1
Bug fix to avoid archive when dependencies are updated.
- corrects mismatched chunk delimiters in documentation
Resolves: https://github.com/yihui/knitr/issues/2057 https://github.com/yihui/knitr/pull/2306
What's Changed
- Remove the extra ` by @yihui in https://github.com/TomKellyGenetics/leiden/pull/16
New Contributors
- @yihui made their first contribution in https://github.com/TomKellyGenetics/leiden/pull/16
Full Changelog: https://github.com/TomKellyGenetics/leiden/compare/0.4.2...0.4.3.1
- R
Published by TomKellyGenetics over 2 years ago
leiden - leiden 0.4.3
removed deprecated method to create sparse matrices
correct links in citations and vignettes
Full Changelog: https://github.com/TomKellyGenetics/leiden/compare/0.4.2...0.4.3
- R
Published by TomKellyGenetics over 3 years ago
leiden - 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
migrates changes to retain on CRAN to leiden 0.4.0 (alpha) with igraph::community_leiden call
updates the benchmarking vignette to compare performance to legacy versions using reticulate
Full Changelog: https://github.com/TomKellyGenetics/leiden/compare/0.3.10...0.4.2
- R
Published by TomKellyGenetics almost 4 years ago
leiden - 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 (https://github.com/yihui/knitr/issues/2057)
update testing for bipartite graphs for compatibility with newer version
What's Changed
- Remove the extra ` by @yihui in https://github.com/TomKellyGenetics/leiden/pull/16
New Contributors
- @yihui made their first contribution in https://github.com/TomKellyGenetics/leiden/pull/16
Full Changelog: https://github.com/TomKellyGenetics/leiden/compare/0.3.9...0.3.10
- R
Published by TomKellyGenetics almost 4 years ago
leiden - leiden 0.3.8
- bug fixes for vignettes to retain on CRAN
- R
Published by TomKellyGenetics almost 5 years ago
leiden - leiden 0.4.1 alpha release
migrates changes to retain on CRAN to leiden 0.4.0 (alpha)
- R
Published by TomKellyGenetics about 5 years ago
leiden - leiden 0.3.7
- remove cairo graphics from vignette to retain on CRAN
- R
Published by TomKellyGenetics about 5 years ago
leiden - leiden 0.4.0 alpha release
adds calling community_leiden in igraph (requires development version of igraph 0.2.7 or later)
- R
Published by TomKellyGenetics about 5 years ago
leiden - 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
- R
Published by TomKellyGenetics about 5 years ago
leiden - leiden 0.3.5
- background changes to build vignettes on CRAN
- R
Published by TomKellyGenetics about 5 years ago
leiden - 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
- R
Published by TomKellyGenetics about 5 years ago
leiden - 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
- R
Published by TomKellyGenetics about 5 years ago
leiden - 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
- R
Published by TomKellyGenetics about 5 years ago
leiden - leiden 0.3.1
Changes needed to avoid casting to dense matrices in Seurat
method for sparse matrices that passes to igraph without casting to dense
added seed and niterations to findpartitions
- R
Published by TomKellyGenetics about 5 years ago
leiden - leiden 0.3.0
Major updates to support igraph objects and avoids casting to dense matrices
Implements calling leiden directly on an igraph object
Separate methods for igraph objects and adjacency matrices
Support for sparse matrices
Benchmarking added to vignettes
- R
Published by TomKellyGenetics about 5 years ago
leiden - leiden 0.2.3
- Adds passing weighted adjacency matrices to derive weight parameters
- R
Published by TomKellyGenetics about 5 years ago
leiden - leiden 0.2.2
- Changes to ensure compatibility with CRAN. Updates to vignettes and documentation.
- R
Published by TomKellyGenetics about 5 years ago
leiden - leiden 0.2.1
- Enable passing arguments to Python functions: initialmembership, weights, and nodesizes.
- R
Published by TomKellyGenetics about 5 years ago
leiden - leiden 0.2.0
- Adds passing arguments to the Python implementation: the partitiontype and resolutionparameter. Runs the RBConfigurationVertexPartition by default (which is equivalent to ModularityVertexPartition with a resolution_parameter of 1).
- R
Published by TomKellyGenetics about 5 years ago
leiden - 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.
- R
Published by TomKellyGenetics about 5 years ago
leiden - leiden 0.1.0
- Implements the Leiden algorithm in R by calling the leidenalg python library. Runs ModularityVertexPartition with defaults.
- R
Published by TomKellyGenetics about 5 years ago