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NEWS
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# Version 1.1.7
* Fixes error that occurred when column names referred to in a design matrix began with numbers or other disallowed characters
* Silences warning on startup about useShinyalert
# Version 1.1.6
* Add Dockerfile
* Remove uneeded error alert for when column names start with numbers
# Version 1.1.5
* Moved rmarkdown, svglite and knitr to required imports to facilitate complete installation.
# Version 1.1.4
* Provide link to example dataset
# Version 1.1.3
* Include rmarkdown as suggested package
* Flexible naming of x- and y-labels
# Version 1.1.2
* Joint color scheme when targeting 'column' in the StatDist tab
# Version 1.1.1
* Minor bugfixes
# Version 1.1.0
* Report document downloads for each tab now provided
# Version 1.0.3
* Warning popup if inserting data frames with variable names changed by make.names
* Some refactoring, primarily in the MapObject
# Version 1.0.2
* Fix issues with incorrectly displaying tables in version 1.0.1
# Version 1.0.1
* Correlation columns appear in tables when present
# Version 1.0.0
* First release version
# Version 0.9.12
* Embedding tutorial videos under "Setup/TutorialVideos"
# Version 0.9.11
* Fix issue in StatDist module where highlights didn't de-select and the lower table always showed the full dataset (not the matched subset)
* Display the version in the header bar
# Version 0.9.10
* Bugfix (introduced in 0.9.8) correcting the direct jump to the feature check module
# Version 0.9.9
* Bugfix (introduced in 0.9.8) where module names and IDs mismatch caused crash
# Version 0.9.8
* Fix issue with missing tutorial images
* Minor fixes, including change of name spotcheck -> feature check
* Include example dataset (data/example_data)
# Version 0.9.7
* Import of all dplyr functions, as missing specific imports caused loading crash
* Include svglite as suggest dependency
# Version 0.9.5
* Rewrite StatDist plots to fully use Plotly (instead of converted ggplot to Plotly)
* Additional customization functionality for spot-check panel
* Additional customization fixing for StatDist panel
# Version 0.9.4
* Increased control over graphics
# Version 0.9.3
* Illustrate contra-regulated features in the StatDist panel
# Version 0.9.2
* Reformatted for R package format
* Include Singularity recipe
* Download settings as JSON format at all modules
# Version 0.9.1
* Include ability to download both Plotly and ggplot-based figures in SVG or PNG with controllable dimensions
# Version 0.9.0
* Preparations for release
* Include MIT license
* Fix issue where second dataset was not unloaded properly
# Version 0.2.3
* Fix so that Upset selection matches correctly for rank ties with split dataset
# Version 0.2.2
* Fix issue where correlation crashed when total combined NA went below required for statistical test
* Fix some issues in Upset overlaps and targeting
# Version 0.2.0
* Feature selection in Upset plot
* Presence / absence selection in Upset plot based on sample conditions
* Directly go to spot-check from features
* Separate coloring in StatDist when selecting features, and button to clean it up
* Clearer communication in Setup page, with alert boxes for incorrect input
* Clean-up in statistics module, including statistical measures also for non-parametric correlation types
# Version 0.1.6
* Fix bug where sample column not detected automatically
* Clearer communication for feature mapping
* Allow discarding duplicates for feature mapping
# Version 0.1.4/5
* Minor leftover fixes missed in 0.1.3
# Version 0.1.3
* Flexible stat patterns allows different suffixes than the Limma. Can by default handle NormalyzerDE outputs, and allows the user to specify custom patterns under 'TableSetup'
* Clarifying error messages when running column coloring where more than the max number of categories are present.
# Version 0.1.2
* Introduces further customization for the Upset-plot and Venn diagram parts:
- Allow explicitly control maximum number of intersects
- Allow ordering Upset plot on degree
- Both Venn and Upset plots can be filtered on a combination of p/FDR-value and fold change
* Omits less informative contra-regulation fraction/p-threshold illustrations for overlap