Changes in version 1.1.3                        

  - changed the default of the GAM estimation to be a Gaussian with log
    link for positivty of the response

                        Changes in version 1.1.2                        

  - wrote a new convenience function crossSpatialInference which makes
    the estimation across a range of cell types easier.

                        Changes in version 1.1.1                        

  - wrote a new convenience function spatialInference which makes the
    FDA estimation of the spatial statistics functions simpler
  - in order to do this various changes to prepData were introduced
  - furthermore, small syntactic changes for the retrieval of the
    functional intercept were added to functionalGam and plotMdl
  - The vignette was simplified to reflect the changes in prepData

                       Changes in version 0.99.14                       

  - changed the example in the Vignette to scaled t-dist. with log link
    due to lower AIC than Gaussian.

                       Changes in version 0.99.13                       

  - changed the example in the vignette to Gaussian with log link and
    smooth random intercept.

                       Changes in version 0.99.12                       

  - Changed indexing of spatial coordinates to positional index. Names
    can differ between objects, e.g. "x" or "coord_x" etc. therefore,
    positional index generalises better.

                       Changes in version 0.99.11                       

  - major changes in fixing the levels of the mark factors in the point
    pattern. Prior to this fix, it could happen that the marks in
    selection do not correspond to the marks in the point pattern and
    therefore give the inverse result.

                       Changes in version 0.99.10                       

  - minor bug fix

                       Changes in version 0.99.9                        

  - remove imcdatasets dependency and instead download example data
    directly from ExperimentHub
  - added small reader function .loadExample to download the data
    mentioned above

                       Changes in version 0.99.8                        

  - more packages explicitly named
  - vignette shows use of PCA based random errors and exchanged one
    sample

                       Changes in version 0.99.7                        

  - explicit package naming for functions to make compatible with linux
    distributions
  - possible to pass ... parameters to fPCA method

                       Changes in version 0.99.6                        

  - small error correction in show fPCA method

                       Changes in version 0.99.5                        

  - change in how failures in calcMetricPerFov are handled. Works now as
    well if rSeq = NULL

                       Changes in version 0.99.4                        

  - variable ID is no longer created in calcMetricPerFov
  - adjusted examples and vignette to the above
  - added option to extract gene expression directly in calcMetricPerFov
    if continuous = TRUE
  - small bug fix in calcMetricPerFov to pass ... in all cases
  - added variables legend.position and ncol to plotMetricPerFov

                       Changes in version 0.99.3                        

  - adjusted by variable to work with length 1
  - adjusted ... in plotMetricPerFov to be passed only to geom_line

  - adjust examples to build in under 10 min

                       Changes in version 0.99.2                        

  - Rewrote vignette with smaller dataset
  - Implemented quasi likelihood family in vignette to improve variance
    estimation
  - Adjustd calcMetricPerFov.R to be able to calculate cross functions

                       Changes in version 0.99.1                        

  - Adressed Bioconductor review
  - Added unit tests
  - Added functional boxplots
  - Added diagnostic plots to vignette

                       Changes in version 0.99.0                        

  - Initial Bioconductor submission.