Changes in version 1.3.3                        

  - minor changes in vignettes to get lighter images

                        Changes in version 1.3.2                        

  - Updaging vignette with details on xenium_small dataset

                        Changes in version 1.3.1                        

  - Added the canonical computeQScore(), computeQScoreFlags(),
    computeOutliersQScore(), and applyQScoreModel() APIs.
  - Retained computeQCScore(), computeQCScoreFlags(),
    computeOutliersQCScore(), and applyQCScoreModel() as deprecated
    compatibility APIs. They preserve historical arguments, QC_score,
    low_qcscore, low_threshold_qcscore, and QCScore_model* metadata.
  - Restored historical plotting arguments (size, alpha, alphaNumbers,
    csize, calpha, mapNumbersCol, and mapAlphaNumbers) as aliases for
    the canonical plotting arguments. Canonical arguments take
    precedence when both forms are supplied.
  - Restored getModelFormula(formulaVars, verbose=FALSE) compatibility
    while accepting metricList as a named replacement.
  - Restored the public computeLambda(trainDF, modelFormula) signature,
    complete-case filtering, and support for both qcscore_train and
    QScore_train.
  - User-supplied modelFormula values are now fitted without adding,
    removing, or rebuilding terms. Supported subsets, additive formulas,
    and selected interactions are preserved.
  - Supported base QC metrics selected by a custom modelFormula now
    determine the outliers, good and bad cells, and QScore_train used
    for model training; omitted metrics no longer contribute to
    training-label construction.
  - Formula predictors are limited to log2SignalDensity, Area_um,
    log2AspectRatio, and log2Ctrl_total_ratio. Unsupported predictors
    and transformations now produce informative errors, and CosMx-only
    border terms are checked against dataset technology.
  - Model transfer now has a canonical public API, preserves training
    matrix column order, supports validated custom formulas, and retains
    the historical deprecated interface.
  - Fixed the SpaceTrooper utilities vignette name and added the bioRxiv
    citation.
  - Follow-up: intercept handling remains unchanged in this release and
    should be reviewed consistently across training, lambda selection,
    prediction, and model transfer.

                        Changes in version 1.1.7                        

  - fixing author name typo

                        Changes in version 1.1.6                        

  - adding new vignette about SpaceTrooper utilities

                        Changes in version 1.1.5                        

  - minor enhancement of cosmx input reading, polygonsCol added
  - minor documentation clarification on QCScore computation
  - cleaned LICENSE stub and creating LICENSE.md file

                        Changes in version 1.1.4                        

  - updating documentation along multiple functions
  - adding graphical abstract
  - updating README
  - updating Vignettes and providing better data examples

                        Changes in version 1.1.3                        

  - fixing verbose message in QC functions.

                        Changes in version 1.1.2                        

  - adding volume instead of area for MERFISH.
  - refactoring log2CountArea to log2DensitySignal
  - added size and alpha arguments to plotCellsFovs
  - added scaleBar argument to plotCellsFovs, plotCentroids,
    plotPolygons and plotZoomFovsMap

                        Changes in version 1.0.1                        

  - fixing minor bugs in AspectRatio internal computation for technology
    missing it.
  - fixing merfish reading where colData where not properly sorted and
    sync with assay cells.

                       Changes in version 0.99.0                        

  - adding unit tests on QC steps
  - adding datasets descriptions