drieslab / Giotto

Spatial omics analysis toolbox

https://drieslab.github.io/Giotto_website/

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v4.0.7 #962

Closed jiajic closed 1 month ago

jiajic commented 1 month ago

Giotto 4.0.7 (2024/05/21)

Breaking changes

crossSectionGenePlot() removed. Use crossSectionFeatPlot() instead
crossSectionGenePlot3D() removed. Use crossSectionFeatPlot3D() instead
insertCrossSectionGenePlot3D() removed Use insertCrossSectionFeatPlot3D() instead

Bug fixes

binSpect() param passing error introduced in v4.0.6
updated viewHMRFresults3D() and viewHMRFresults2D()
updated createCrossSections(), insertCrossSectionSpatPlot3D(), crossSectionPlot(), crossSectionFeatPlot3D(), insertCrossSectionFeatPlot3D(), crossSectionPlot3D(), crossSectionFeatPlot()

Changes

GiottoVisuals (>= 0.2.1) and GiottoClass (>= 0.3.1) are now required.

Several other bugs to do with the switch to a unified @images slot and joinGiottoObjects() addressed in GiottoClass 0.3.1
GiottoData is also updated to v0.2.11.0 with updated Visium, CosMx, and starmap mini objects