Changes in version 1.11.6 (2020-07-18)                 

    o   Fixed a bug in the initialization of beta_j.

    o   Fixed a bug in zinbsurf.

    o   Changed zinbwave default to `K=2`.

    o   Fix bug in the initialization of W.

                 Changes in version 1.7.5 (2019-10-08)                  

    o   Changed default of `zinbwave` to `observationalWeights=FALSE` to speed up
	computations when weights are not needed.

    o   Added argument `zeroinflation = TRUE`: when set to FALSE a negative binomial
	model is fit.

    o   Removed dependence on the `copula` package to avoid depending on `gsl`.

                 Changes in version 1.5.3 (2019-04-19)                  

    o   Updated vignette to reflect new way of interacting with Seurat.

    o   Illustrate the use of approximate `zinbsurf` function.

                 Changes in version 1.4.2 (2019-03-11)                  

    o   Fix bug in computeObservationalWeights.

                 Changes in version 1.3.1 (2018-05-09)                  

    o   New `zinbsurf` function implements approximate method for large matrices.

    o   New option `which_genes` in `zinbwave` to specify which genes to use to
	compute `W`.

                 Changes in version 1.1.6 (2018-04-17)                  

    o   `zinbwave` now uses `counts` assay by default.

    o   Users can now specify which assay to use to fit the zinb model.

                 Changes in version 1.1.5 (2018-02-15)                  

    o   Computational weights are computed in `zinbwave` as saved as assay.

    o   Modified vignette to include example of Differential Expression.

    o   Improved documentation for `zinbwave`.

                Changes in version 0.99.10 (2017-10-23)                 

    o   Added AIC and BIC to decide number of factors

    o   Added function to compute observational weights for DE

                 Changes in version 0.99.7 (2017-07-17)                 

    o   `zinbwave()` now returns a `SingleCellExperiment` object.

                 Changes in version 0.99.6 (2017-07-05)                 

    o   Fixed bug in zinb.loglik.matrix to avoid Inf values

                 Changes in version 0.99.5 (2017-07-03)                 

    o   Added function computeDevianceResiduals() to compute residuals

    o   Added function imputeZeros() to use the model to impute technical zeros

    o   Added function zinbwave() to perform dimensionality reduction

    o   Changed vignette to illustrate new functions

                 Changes in version 0.99.4 (2017-06-08)                 

    o   Switch from parallel to BiocParallel

    o   Improvements to code efficiency, e.g., avoid copying ZinbModel objects

                 Changes in version 0.99.3 (2017-05-31)                 

    o   More informative Description: field

    o   Improved documentation

    o   Added getAlpha, getBeta, and getGamma accessor functions

    o   Improved show() method

    o   Vectorized code in zinbSim()

    o   Fixed bug that introduced an error when initializing an object with empty X or V

    o   Added tests on numerical correctness

                 Changes in version 0.99.2 (2017-05-12)                 

    o   New formula interface for SummarizedExperiment

    o   Add t-SNE example to vignette

                 Changes in version 0.99.0 (2017-05-09)                 

    o   Bumped version for submission to Bioconductor

    o   Minor changes to compile vignette

    o   Required R version 3.4

                 Changes in version 0.1.4 (2017-04-10)                  

    o   Improved documentation

    o   zinbSim now produces matrix of J x n dimension

    o   Removed unnecessary dependency on clusterExperiment

    o   Additional tests

    o   Better default for epsilon

                 Changes in version 0.1.2 (2017-03-29)                  

    o   New vignette

    o   Change name to zinbwave

                 Changes in version 0.1.0 (2016-09-23)                  

    o   Introducing S4 class zinbModel

    o   Major restructuring of the initialization and optimization (see vignette)

    o   Method zinbFit to fit a model

    o   Many other methods, including zinbInitialize, zinbOptimize, zinbSim