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@mojaveazure mojaveazure released this 07 Sep 16:57
· 3391 commits to master since this release
v3.2.1
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Deprecations

  • CreateActivityMatrix deprecated in favor of Signac::GeneActivity
  • ReadAlevin and ReadAlevinCsv deprecated in favor of SeuratWrappers::ReadAlevin
  • ExportToCellbrowser and StopCellbrowser deprecated in favor of SeuratWrappers::ExportToCellbrowser and SeuratWrappers::StopCellbrowser
  • ReadH5AD and WriteH5AD deprecated in favor of h5Seurat/H5AD functionality found in SeuratDisk
  • as.loom and as.Seurat.loom deprecated in favor of functionality found in SeuratDisk

Changes

  • Allow setting slot parameter in RunUMAP
  • Added support for FIt-SNE v1.2+
  • Fix for Spatial*Plot when running with interactive=TRUE
  • Set max for number of items returned by Top and remove duplicate items when balanced=TRUE
  • Fix logging bug when functions were run via do.call()
  • Fix handling of weight.by.var parameter when approx=FALSE in RunPCA()
  • Fix issue where feature names with dashes crashed CellSelector
  • Fix issue where errors in subsetting were being swallowed
  • Fix issue where labeling uncropped spatial plots was broken

Additions

  • Added support for nearest neighbor input and return.model parameter in RunUMAP()
  • Enable named color vectors in DoHeatmap()
  • Add label.color and label.box parameters to DimPlot
  • Added shuffle and seed parameters to DimPlot() to help with overplotting
  • Added new stacked violin plot functionality
Assets 2