CHANGES IN VERSION 1.4.1 * Version number and small edits for bioconductor compliance * Removed singscore method * Added UCell functions internally so they are compatible with Bioconductor CHANGES IN VERSION 1.3.4 * Normalization for ssGSEA no longer uses the range of all gene sets, but columns, normalizing it to 0 to 1. * Added Kruskal-Wallis test for additional support of multi-group comparison CHANGES IN VERSION 1.3.3 * Added wilcoxon and LR for getSignificance * median calculated and appended to the getSignificance() function output * ANOVA in getSignificance() returns p-values for each comparison using TukeyHSD() * new parameter gene.sets getSignificance() to select only gene sets or subsets. * enrichmentPlot() beta release * Added subcategory to getGeneSets to select subsets of libraries. * Added default coloring to enrichmentPlot() * enrichmentPlot() now imports calculations partially from GSVA internal functions to facilitate use of C * Filtering based on min.size now works instead of not working. CHANGES IN VERSION 1.3.2 * Added removal of gene sets with less than x features parameter in enrichIt - min.size * Added Ucell and singScore support * new parameter gene.sets in MasterPCAPlot() and performPCA() to allow for selecting specific columns and prevent using other numeric vectors in meta data. CHANGES IN VERSION 1.3.1 * Aligning versions to the current bioconductor release * Added DietSeurat() call in vignette to prevent issues * Adding internal gene sets - escape.gene.sets * Removed lm.fit using limma from getSignificance CHANGES IN VERSION 1.0.1 * Removed ggrepel, rlang, and factoextra dependencies. * Updated Seurat package switch * Switch the way counts are processed by first eliminating rows with 0 expression in the sparse matrix before converting to a full matrix CHANGES IN VERSION 0.99.9 * Changing Seurat dependency, updated vignette CHANGES IN VERSION 0.99.8 * Edited getSignificance ANOVA model call CHANGES IN VERSION 0.99.7 * Edited getSignificance fit call to match documentation CHANGES IN VERSION 0.99.6 * Edited match.args() in getSignificance CHANGES IN VERSION 0.99.5 * Edited match.args() in getSignificance CHANGES IN VERSION 0.99.4 * Added match.args() to getSignificance * Changed stop() to message() * Modified getSignficance to allow for ANOVA and T.test CHANGES IN VERSION 0.99.3 * Updated link in description of getGeneSets. CHANGES IN VERSION 0.99.2 *Fixed a parenthesis, yeah a parenthesis. (In enrichIt() call I edited for 99.1) CHANGES IN VERSION 0.99.1 * Removed parallel call in gsva() and added biocparallel * Changed cores = 4 to cores = 2 in the vignette CHANGES IN VERSION 0.99.0 * Preparing for bioconductor submission