James Nagai

@qiuhuiqq Did you feed the PCA matrix to PHATE instead of the raw count matrix? When i did it in my end, i could retrieve pretty close results compared to...

@JDavies95 Are you using CellPhoneDB input to CrossTalkeR? How many cell types do you have? I need more details about what you have.

Hi @zhanglab2008, in the current version you are able to compare more than one condition per time. Let's say that you have control, disease 1 and disease 2. You can...

@zhanglab2008 sorry for the late reply, you should be able to do it using the data object and the emax parameter in the plot_cci function.

Hi @ankurnaqib 82k cells divided into 6 sample groups...Do you mean 6 different phenotypes or 6 cell populations? Best

Hi @ Alex1235321, fixing the detail in the draw_network part is necessary. It has to do with the updates in both networkx and Matplotlib. ping you here if i can...

Hey @Alex1235321, that is not exactly what I meant, if you take some time and read the code (as one should), you'd realize that the code here was build-inspired in...

tysm SkBlaz, im a bit busy with other projects on my Ph.D. but I can try to check that as soon as I have some spare time. Best

@liyang24 sorry for the late reply, would it be possible for to you check the number of components that your graph has? On that you possibly can you is subset...