Changes in version 4.1.4 (2023-09-26)                  

Changes

  - Fixes for CellsByIdentities (#80)
  - Remove {rgeos} from Suggests and replace with {sf} due to {rgeos}
    package retirement
  - New check for potential binary breaks between dependencies and
    SeuratObject

                 Changes in version 4.1.3 (2022-11-07)                  

Changes

  - Move {rgeos} to Suggests; segmentation simplification now requires
    {rgeos} to be installed manually
  - Move {sp} to Depends

Added

  - Add keys to Assays and DimReducs in UpdateSeuratObject when missing

                 Changes in version 4.1.2 (2022-09-20)                  

Changed

  - Bump required Matrix version to >= 1.5.0

                 Changes in version 4.1.1 (2022-08-29)                  

Changed

  - Update sparse matrix coersions due to Matrix deprecations

                 Changes in version 4.1.0 (2022-05-01)                  

Changed

  - Allow UpdateSeuratObject to work when data is NULL (#38)
  - Fix superclass issue with R-devel 4.3.x (#42)

Added

  - New FOV, Segmentations, Centroids, and Molecules classes for
    imaging-based spatial datasets

                 Changes in version 4.0.4 (2021-11-23)                  

Changed

  - CreateSeuratObject.Assay sets Assay key when not present (#29)
  - Ignore warnings when creating an Assay from a data frame (#32)

Added

  - New CheckMatrix generic for validating expression matrices

                 Changes in version 4.0.3 (2021-11-10)                  

Changed

  - Export utility functions (#22)
  - Bug fix in names with Key.Seurat (#26)
  - Improved duplicate key checking and resolution

                 Changes in version 4.0.2 (2021-06-09)                  

Changed

  - Provide default option for Seurat.checkdots option if option is not
    set (#16)

                 Changes in version 4.0.1 (2021-05-08)                  

Added

  - head and tail methods for Seurat and Assay objects (#5)
  - New utility functions (#6):
      - AttachDeps to attach required imported dependencies on package
        attachment
      - IsMatrixEmpty to test if a matrix is empty or not

Changed

  - Allow super classes to replace child classes (#1). For example,
    allows Assay objects to replace Seurat::SCTAssay or
    Signac::ChromatinAssay objects of the same name
  - Better support for creating sparse matrices from data.table/tibble
    objects (#4)
  - Improved error messages for clashing object names (#7)
  - Allow returning a NULL if a subset results in zero cells (#9)

Removed

  - SCT-specific code (#2)

                 Changes in version 4.0.0 (2021-01-15)                  

  - Initial release of SeuratObject