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Stable release V3.9.0
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@github-actions github-actions released this 09 Jun 17:31
V3.9.0
5b55d31

3.9.0 (2023-06-09)

Version 3.9.0 of RNAlysis introduces several enhancements and fixes to improve your experience.
The release includes additional enrichment plot styles, a new option for PCA plots,
the ability to load and save data tables in Parquet format, and new actions in the Help menu for reporting issues and suggesting improvements.
The update also improves the performance of various functions, ensures consistency in font and theme settings,
and addresses multiple bug fixes, including issues with automatic session reports and visualization functions.

Added

  • Added additional parameters to enrichment bar plots (enrichment.enrichment_bar_plot), including a new plot style ('lollipop') and observed/expected labels on the graph.
  • Added a new parameter to Principal Component Analysis plots (CountFilter.pca) 'plot_grid', which can enable or disable adding a grid to PCA plots.
  • RNAlysis can now load and save data tables in Parquet format (.parquet)
  • Added new actions to the Help menu, allowing users to report issues, suggest issues, or open discussions.

Changed

  • Functions in the FASTQ model are now added to automatic session reports.
  • Many of the functions in RNAlysis should now run faster.
  • Font type, size, and color for help tooltips should now match the global font settings.
  • True/False toggle switches now scale with font size.
  • When loading data tables into RNAlysis, you will now see only supported file formats by default.
  • Clustering PCA plots are now plotted in proportion to the % variance explained by each PC.
  • The legend in clustering PCA plots is now draggable.

Fixed

  • Fixed bug where data tables generated through the FASTQ model would not display properly in automatic session reports.
  • Fixed bug where graphs generated through the Visualize Gene Sets window would not be added to automatic analysis report.
  • When saving a file through the graphical interface, automatically-suggested filenames no longer contain illegal characters.
  • Improved clarity of error message when R installation folder is not found.
  • Fixed bug where some input parameter widgets in the RNAlysis graphical interface would not display properly.
  • RNAlysis now provides a clearer warning message when attempting to run HDBSCAN clustering, if the hdbscan package is not installed.
  • Label text in PCA plots and hierarchical clustergrams should no longer be cropped outside of the visible region of the plot.
  • Fixed bug where some visualization functions, such as pair-plot (CountFilter.pairplot) would not display properly due to version mismatches between pandas and seaborn.
  • Improved clarity of error messages when external apps' (kallisto, bowtie2, etc) installation folders are not found.
  • Fixed bug where running the RNAlysis graphical interface on a new computer would sometimes raise an error (thanks to NeuroRookie in #25).
  • Fixed a bug where the 'min_samples' parameter in HDBSCAN clustering could not be disabled.
  • Fixed a bug where applying a function to a gene set with inplace=False would cause the new gene set to be called 'New Table'.
  • Fixed a bug where RNAlysis would display the message "Pipeline saved successfully", even when the user cancels the save operation.

New Contributors

  • [NeuroRookie] in [#25]
Assets 4
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