Changes in version 2.2.5 Minor Changes - Added sva batch correction method (for unknown variation correction) Changes in version 2.2.4 Major Changes - Updated variation ratio analysis to be log transformed - Added umap exploratory option Changes in version 2.2.3 Major Changes - Added limma as a batch correction - Added umap plot option - Added ellipses to pca plot Minor Changes - Set p-val plot x scale to always be 0 to 1 - Removed Intercept from p-val violin plots Changes in version 2.2.2 Minor Changes - Updated SE object upload to allow assays of any name (no longer require one assay to be called "counts") Changes in version 2.2.1 Minor Changes - Added pval information to the DESeq2 binomial evaluation Changes in version 2.1.6 Bug Fixes - Corrected code for proper division of less than or 20+ samples #Version 2.1.5 bug Fixes - Coerce variable of interest to a factor Changes in version 2.1.4 Major Changes - Added negative binomial check for 20+ samples to DESeq2 Changes in version 2.1.3 Major Changes - Added negative binomial check for less than 20 samples to DESeq2 Changes in version 2.1.2 Major Changes - Added Variation Ratio Statistic to the explained variation tab Minor Changes - Removed extra "Samples" column from example data - Uploaded bladder example data batch variable as a factor Changes in version 2.1.1 Bug Fixes - Updated imports to include shinyjs - Updated imports to remove dendextend which is no longer utilized - Corrected typos in Intro vignette Changes in version 2.0.0 Bug Fixes - Fixed various errors for the Bioconductor build Major Changes - Created interactive Shiny interface - Allow user upload of data - Allow user download of Batch corrected and/or normalized data - Added Example Data Functionality Minor Changes - Added a NEWS.md file to track changes to the package. Changes made to dendrogram - Added dendrogram_color_palette.R for coloring dendrogram - Updated dendrogram.R allowing batch & category to plot together