v0.3.5

GiottoClass 0.3.5 (2024/08/28)

breaking changes

• set_giotto_python_path() will now also initialize python env to set by default and print which python env is active, but otherwise do nothing if any python env has already been initialized.
• deprecated readGiottoInstructions(), showGiottoInstructions(), changeGiottoInstructions(), replaceGiottoInstructions() in favor of instructions() generic

bug fixes

• intensity images now automatically scale to estimated highest value
• giottoPolygon plot() default max_poly raised to 1e6
• giottoInstructions no longer lose class when specific params are replaced
• ometif_to_tif() now checks for imagecodecs package as well
• anndataToGiotto() and giottoToAnndata now check for anndata package as well.
• fix joinGiottoObjects() "z_stack" join method
• fix error in documentation #214 by shaojunyu
• fix error in installGiottoEnvironment() #1006 by 13954380607

enhancements

• print() method for giottoInstructions
• rbind() for spatLocsObj