Changes in version 1.5.5 (2017-10-19) o `scater` now works based on `SingleCellExperiment` class o `sc3` slot has moved to the `metadata` slot of `SingleCellExperiment` class o `scater` class is completely deprecated from `SC3` o All `scater` functionality can work on `SingleCellExperiment` class o Clustering logic hasn't been changed at all Changes in version 1.3.7 (2016-11-23) o RSelenium functionality is removed due to no further support o All results (clustering and biology) are now written to phenoData and featureData slots of the input 'SCESet' object o 'Labels' and 'Cell Outliers' tabs in the interactive shiny session are removed, because these data can now be visualized on the other heatmaps Changes in version 1.1.7 (2016-09-14) o Added integration with `scater` package o Added full non-interactive support Changes in version 1.1.6 (2016-08-04) o Optimised distance and consensus calculations using Rccp o Optimised some other bits and pieces o `SC3` is now up to 2 times faster for 1000 cells datasets Changes in version 1.1.5 (2016-06-28) o Added svm.train.inds parameter - it allows a user to train SVM on a selected subset of cells Changes in version 0.99.37 (2016-04-15) o tSNE panel is added to the interactive session o additional table has been added to the output - it contains original and new cell labels in the order corresponding to the order of cells in the input expression matrix o three functions corresponding to biological interpretation are now exported and can be used manually: get_de_genes, get_marker_genes, get_outl_cells. See their documentation for more details o several bugs have been fixed Changes in version 0.99.23 (2016-03-01) o Major redesign o Added description panels o Fixed a bug with RSelenium o Added a proper Excel export using WriteXLS library Changes in version 0.99.0 (2015-12-10) o The first version 0.99.0 is submitted to Bioconductor