Runyu Xia

Use the model with multiple covariants including numeric ones?

1

Hi! I was wondering if the model could be used with three categorical variables (sex, genotype) as well as a numeric variable (age) at the same time？

Hi! I was wondering what are the differences between creating a cellchat object for each sample individually and then compare the probability versus merging the object and then compare using...

Hi! I'm running CellChat on individual samples, and I've noticed that certain signaling pathways are only identified in specific samples. When I try to extract these pathways for some samples,...

Hi! I was wondering if it is possible to perform cellchat with a continuous variable? Eg. change in signal strength/information flow with age. Thank you!!

Visium HD bivariate output infer cell types?

1

Thank you for developing such a great package! I am currently experimenting with running Liana+ on my Visium HD dataset. I have tried the bivariate method while treating each 8µm...

Installation issue

1

Hello! I'm having problems installing omicverse with this error message. I followed the installation guide for conda. Thank you!

...Hi! For using squidpy ligrec do I need to convert mouse genome to human?

Hi! I’ve been running pySCENIC on my integrated mouse cell atlas using raw counts, but when I look at the UMAP generated from the AUC scores, I’m seeing strong batch...

Hi! I was wondering if I could try using SpaTalk on my visium HD data?

Circular plot unable to specify source and target

4

Hi! I’m currently using the circle_plot function to visualize interactions between selected source and target cell types. However, I’ve run into some issues — the filtering doesn’t seem to be...