Release v1.4.0 - Allow custom y-axis label and scale - Keep spaces in set names when filling empty intersections - fixed bug for single set (degree of 1) intersection query when using fromExpression - Changed point shape to 16 - Include set_size.show paramter and added documentation ----------------- Release v1.3.3 - Made element query compatible with check.names - Removed border from active query bars - Adjusted metadata heatmap and text title positions (centered title and removed 90 degree rotation) ----------------- Release v1.3.2 - Update logarithmic axis and bar labels - Allow decimal values for log scales - Set intersection size axis min to 0 for log scales ----------------- Release v1.3.1 - Fixed log scale bugs - Allow users to label their own queries, which can be displayed in query legend - Fixed query legend positioning bug. Allows query legend to be placed on top or bottom of plot grid - Fixed warnings and notes from new ggplot2 release - Updated plot margin of intersection size bar plot ----------------- Release v1.3.0 - Introduced text scales for all plot axis labels, tick labels, set names, and numbers above the bars - Removed names.size parameter and replaced it with a text scale - Fixed vignettes so plot size and text is appropriately scaled ----------------- Release v1.2.4 - Fixed check.names bug so that it reorders the set size bar plot, not just the set labels - Show all intersections when nintersects is set to NA ----------------- Release v1.2.3 - Allow user to keep order of sets entered when using sets parameter - Updated Basic Usage vignette with example on how to do this ----------------- Release v1.2.2 - Support for log10 and log2 scale transformations ----------------- Release v1.2.1 - Updated vignettes - Adjusted metadata plot text size for ggplot2 update - Default gray88 color if matrix_rows metadata attribute used and no colors supplied - Fixed metadata error so that matrix_rows may be used alone - New link to UpSetR Shiny app in README ----------------- Release v1.2.0 - Options for set metadata heat map, boolean heat map, text, and bar plot - Allow for multiple set metadata plots - Option to color matrix background using metadata - Created set.metadata.plots vignette - Removed set metadata example from attribute.plots vignette - Size adjustment of geoms for ggplot2 version 2.1.0 ----------------- Release v1.1.1 - Added selective import from plyr package to avoid warning from gridExtra package update (Requested by CRAN) ----------------- Release v1.1.0 - Added set metadata plot feature - Added intersections parameter to include only intersections specified - Reorder sets when using `sets` or `intersections` parameter - Add label option for intersection size and set size bar plots - Include boxplot summary example in attribute vignette - Added set metadata example in attribute vignette and label parameter examples to basic usage vignette ----------------- Release v1.0.3 - Fixed overlapping between matrix and intersection size bar plot (caused by late changes to ggplot2 update) - Updated vignettes to regenerate plots from new code ----------------- Release v1.0.2 - Updated vignettes to include examples of the fromExpression and fromList functions - Changed to selective imports from grid package ----------------- Release v1.0.1 - Fixed matrix plot to correctly work with new ggplot2 update ----------------- Release v1.0.0 - Added directionality when choosing sets (-1,0,+1) - Allowed for NA's in non-set columns - Added increasing/decreasing options for ordering intersections - Added fromList to convert a list of named vectors to an UpSetR data frame - Added fromExpression to convert a vector acting as an expression to an UpSetR data frame - Updated vignette for alternative input formats (list & expression) ----------------- Release v.0.0.5 - Now plotting using the base grid package to make compatible with all versions of gridExtra package - Allowed for element query overlay of intersection size bars - Added vignettes of basic usage, queries, and attribute plots - Matched set size font with intersection size font - Added utils, stats, methods, grDevices to imports to be safe (usually pre-installed) - Added badges - Updated README - Bumped required R version up to 3.0 ----------------- Release v.0.0.4 - changed aes to aes_string for ggplot2 aesthetics ----------------- Release v0.0.3 - Fixed all CRAN issues - changed all ggplot2 aesthetics to aes_string() to resort from using "hacky" methods to get around CRAN issues ----------------- Release v0.0.2 - Renamed custom.plots as attribute.plots to better fit its purpose. - Re-added query legend option when user selects for attribute plots - Lowered minimum required R version. - Allowed for 360 degree rotation of intersection size bar labels - Changed default color of matrix shaing from dodgerblue to light gray ----------------- Release v0.0.1 - First public release.