Bioconductor 3.10

• Add the (experimental) Kersplat simulation model. This model incorporates a gene network and other useful features.
• Refactor the summariseDiff() function and add the KS statistic.
• Add variable gene correlation plot to compareSCEs() and violins to other comparison plots.
• Check for counts assay when estimating from SingleCellExperiment objects.
• Fix where simpleSimulate() stores parameters.
• Fix bugs where parameters were not being passed correctly in BASiCSEstimate() and sparseDCEstimate().
• Replace the sc_example_counts dataset from scater with the mockSCE() function.
• Tidy and improve estimation function examples and add checks for suggested packages.
• Various fixes for compatibility with updates to other packages.

Bioconductor 3.9 release

• Add a Splat parameters vignette
• Rename the Splat path.length parameter to path.nSteps
• Fix a bug with parameter order in setParams
• Fix a bug where Splat groups were being simulated in alphanumeric order
• Protect against integer overflow in simulation functions

Bioconductor 3.8 release

• Fix bug and improve normality testing in splatEstLib
• Fixes for compatibility with the latest version of BASiCS, BASiCSEstimate now uses the regression method
• Fix bug in getLNormFactors when reversing factors less than one
• Various updates to tests and documentation

Bioconductor 3.7 release

• Move scater to Imports and add scater version
• Remove lingering references to SCESets
• Add option to use a normal distribution for library sizes in Splat simulations
• Allow Splat dropout parameters to be specified by experiment, batch, group or cell
• Add SparseDC simulation
• Rename params in metadata slot of simulation to Params for consistency
• Improve and colourise Params print output
• Improve test coverage
• Various other minor updates and bug fixes

Version 1.2.0

Bioconductor 3.6 release version

Version 1.1.3 (BASiCS)

Version 1.1.3 of Splatter with the BASiCS simulation. This is the version of Splatter used in the response to reviewers for the Splatter paper https://doi.org/10.5281/zenodo.833572.