Changes in version 1.11.2 - Deprecated functions in version 1.8.0 are now Defunct. filter (defunct since 1.8.0) has been removed. Use mast_filter now. - Refactored the FromMatrix constructor so that list-like assays don't make a roundtrip through an array. This allows sparse-matrix and HDF5-backed assays to be provided to the constructor. - zlm gains an exprs_value argument to allow the assay to be selected that will be tested. Changes in version 1.5.3 Transition to use SingleCellExperiment and manage log counts slot. Version 1.7.3 - Fixed a bug were weighted residuals weren't being returned, causing the residuals hook to fail. - Fixed documentation and vignettes. - Added CovFromBoots() API to return inter-gene covariance matrices for model coefficients from GSEA bootstraps. - Added some files and directories to .Rbuildignore to address notes and warnings.