ST Viewer Release

• Improved the differential expression analysis
• Added one new heatmap colour
• Performing the normalization on all the genes (whether they are selected or not)
• Removed white circles for non visible spots
• Bumped R to 3.6
• Made Scran normalization more robust

(This release is bound to R 3.6.0)

ST Viewer Release

• Remove Scran and DESeq2 normalisation from the visual settings
• Remove the update button in the visualisation settings
• Fix a bug when showing spots while there are no genes shown
• Add EdgeR to the methods options for the DEA widget
• Enforce Scran normalisation in the DEA widget
• Optimize the Scran normalisation settings in general
• Bump R to 3.5

(The binaries are generated for R 3.5.1)

ST Viewer release

* Removed the online support
* Datasets are now loaded manually in different ways
* Added support to include a file with spot coordinates in the dataset
* Added support to include a file with spike-ins in the dataset
* Added support to include a file with normalization factors in the dataset
* Added support to adjust the chip size in the dataset
* Datasets are now working with the latest matrix TSV format
* If no spot coordinates are given the alignment matrix will be computed automatically
* Added a view with the spots to allow: select, show, hide, color, etc...
* Added the total count for the Genes and Spots view
* Added widget to show QC stats
* Added option to load gene colors
* Added option to load spot colors
* Added option to perform clustering on a dataset
* Added option to select based on the clustered spots
* Added lasso selection
* Added option to export/import selections
* Selections are now sub-matrices of a dataset
* Added widget to compute correlation between 2 selections
* Added widget to compute DEA (Differential Expression Analysis) between 2 selections
* Bug fixes and improvements
* UI optimizations
* Speed improvements
* Removed deprecated stuff