Changes in version 0.1.8 (2025-09-30)                  

Add

  - Support for LongVectors for graphs with more than 2 ^ 31 edges.
  - Test for full weighted graph.

Changed

  - Update libSE2 to 0.1.13 (improves performance and error handling)
    and subsequently igraph to 1.0.0
  - Write C constructors to directly convert R SEXP types to SE2 types
    without having to go through igraph data type as an intermediate.
    Especially in weighted full graphs, this reduces memory requirements
    by a scalar factor and reduces the time it takes to perform the
    conversion.

Fixed

  - In cluster_genes fix directedness of a symmetric correlation matrix.
  - Printing in C files. Previously was adding extra linebreaks.

                 Changes in version 0.1.7 (2025-09-05)                  

Changed

  - Update libSE2 to 0.1.11. Fixes issue with subclustering.

                 Changes in version 0.1.6 (2025-08-28)                  

Changed

  - Update libSE2 to 0.1.10. Performance improvements.

                 Changes in version 0.1.5 (2025-04-03)                  

Changed

  - Update libSE2 to 0.1.9. Improves performance on graphs with skewed
    weight distributions.

Fixed

  - Remove bashism in configure.ac

                 Changes in version 0.1.4 (2024-09-24)                  

Add

  - A high level function for clustering genes based on gene expression.

Changed

  - Update libSE2 to 0.1.8.

Fixed

  - Replace deprecated use of CHARACTER*len in arpack.

                 Changes in version 0.1.3 (2024-08-20)                  

Add

  - Ability to interrupt speakeasy 2.
  - Release built tarball for manual installation.
  - Add explicit test for reproducible results.

Changed

  - Update SE2 C library providing performance improvements.
  - Tests to be based on quality of clustering instead of exact match to
    previous run. Since SE2 is stochastic, tweaking the underlying
    algorithm can change the resulting membership vector even when using
    a random seed. Even if the membership vector is not identical it
    should be similar based on normalized mutual information.

Fixed

  - Clean up generated module files when compiling using intel's fortran
    compiler.

                 Changes in version 0.1.2 (2024-07-29)                  

Add

  - Contributors of vendored software to DESCRIPTION.
  - Support for external ARPACK

Changed

  - Use autoconf to generate configure file in order to detect system
    packages and support for pthreads.
  - Remove support for compiling internal linear algebra packages and no
    longer ship source code for those packages.

Fixed

  - Prevent unused igraph vendored packages from being shipped in the
    source tarball.
  - Update SE2 C library to fix address sanitizer errors.

                        Changes in version 0.1.1                        

Fixed

  - Guard against missing suggested packages in vignettes, tests, and
    examples.

                 Changes in version 0.1.0 (2024-06-18)                  

Add

  - Set up as R package
  - Cluster
  - Order nodes
  - Knn graph