NEWS

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ReactomeGSA 1.21.1 (2024-11-07)

• Added new functions to perform quantitative comparative pathway analyses for scRNA-seq data.

ReactomeGSA 1.17.3 (2024-02-01)

• Fixed a bug in vignette showcasing the reanalysis of public data.

ReactomeGSA 1.17.2 (2023-11-28)

• Added a set of new functions to support ReactomeGSA's features to load public datasets.
• Added a new vignette to showcase how public datasets can easily be loaded using the ReactomeGSA package.

ReactomeGSA 1.17.1

• Fixed vignettes

ReactomeGSA 1.13.1 (2023-04-13)

• Fixed documentation mismatch in "plot_heatmap"

ReactomeGSA 1.9.1 (2021-11-05)

• Adapted default FDR threshold in "plot_heatmap" to match other functions.

ReactomeGSA 1.7.5 (2021-09-28)

• Fixed documentation of "plot_heatmap"

ReactomeGSA 1.7.4 (2021-09-24)

• Added new plotting function "plot_heatmap"

ReactomeGSA 1.7.3 (2021-09-14)

• Updated vignette to introduce the "open_reactome" command

ReactomeGSA 1.7.2 (2021-09-09)

• Fixed timeout issue during large requests in perform_reactome_analysis

ReactomeGSA 1.7.1 (2021-06-09)

• Fixed bug in scRNA-seq vignette.

ReactomeGSA 1.5.2 (2021-04-16)

• Added check to ensure that clustering was performed in Seurat objects prior to the pathway analysis.

ReactomeGSA 1.5.1 (2021-04-01)

• Fixed bug in perform_reactome_analysis: Error messages were not displayed correctly.

ReactomeGSA 1.3.7 (2020-09-29)

• Fixed bug in plot_gsva_pathway

ReactomeGSA 1.3.6 (2020-09-01)

• Improved analyse_sc_clusters for SingleCellExperiment objects to define cell grouping using factors and a single character string specifying the metada field.

ReactomeGSA 1.3.4 (2020-09-01)

• Fixed bug in analyse_sc_clusters when processing SingleCellExperiment objects.

ReactomeGSA 1.3.3 (2020-05-26)

• Updated documentation

ReactomeGSA 1.3.2 (2020-05-26)

• Added workaround for SEC_E_ILLEGAL_MESSAGE error on older Windows systems.

ReactomeGSA 1.3.1 (2020-04-29)

• Added option to hide non-significant pathway in plot_correlations

ReactomeGSA 1.1.4 (2020-04-20)

• bioRxiv paper is out!

ReactomeGSA 1.1.3 (2020-04-11)

• Added custom function to calculate average cluster expression for Seurat objects

ReactomeGSA 1.1.2 (2020-03-13)

• Add support manually track the status of submitted analyses
• Added additional signature to add_dataset to support expression values as matrix

ReactomeGSA 1.1.1 (2020-02-19)

• Compress JSON requests using gzip to improve performance for large datasets

ReactomeGSA 0.99.8 (2019-08-13)

• Removed package startup message
• Changed spelling of name to ReactomeGSA
• Removed all default values from the method signatures
• Added constructor function for the ReactomeAnalysisRequest class.

ReactomeGSA 0.99.7 (2019-07-22)

• Adapted the get_reactome_methods function to provide a more readable overview
• Changed to reactome analysis service API URL to the new domain name.

ReactomeGSA 0.99.6 (2019-07-09)

• Minor bugfixes in examples

ReactomeGSA 0.99.5 (2019-07-09)

• Updated vignette to new API data types
• Added new function remove_dataset
• Fixed bugs when overwriting existing datasets in AnalysisRequests
• Fixed bug that pathways function did not sort the pathway table

ReactomeGSA 0.99.0 (2019-07-01)

• Submitted to Bioconductor