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SydneyBioX / spicyR

https://sydneybiox.github.io/spicyR/
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groups in spicy comparison #29

Closed SchulzDan closed 10 months ago

SchulzDan commented 11 months ago

Hi Ellis,

been using the spicy function a few times and like it. One thing that confuses me is that I am always unsure which comparison is group A and group B (e.g. in the signifPlot). I see that I can call the object (result of the function) and then in my particular case now it says: "Number of differentially localised cell type pairs: conditionlow_low_density 58" also in the other tables of the object that is the condition that is listed so assuming that it is group B?

Thanks for clarifying.

Daniel

nilseling commented 10 months ago

I'm also a bit confused. @SchulzDan have a look at the spicyBoxPlot function. I think this one visualizes the L function. In my case it seems like the condition that is printed is the one of "GroupA". But @ellispatrick maybe it would be nice in the signifPlot function to correctly label the conditions instead of using the generic terms "GroupA" and "GroupB".

nick-robo commented 10 months ago

We have added a variable to signifPlot to specify the comparison group (comparisonGroup). Now the plot will also show the correct labels in the condition legend.