Suoqin Jin
Suoqin Jin
do you have any information on the unit of the spatial corordinates in slide-seq v2? Are they in micrometers or pixels?
@Dena2021 Two issues were observed: 1) You should use the normalized data, which should be not the count data. In your seurat object, the data slot is the same as...
@yunbokai No idea on this error. It works when I tried `netVisual_aggregate(cellchat, signaling = pathways.show, layout = "spatial", slice.use = "A1")`
@cynthier Please click the hyper link in the reademe file. The one you used is an old one.
@anjrao17 Hello, we thought about this question before. I agree that considering the proportion is particular useful for visium, but do you have any idea on how to estimate the...
Thank you @pedriniedoardo Will take a look to see if it is suitable to use for cell-cell communication inference.
@songmingl It is possible that you see blanks in ligand.symbol or receptor.symbol because we did not carefully check this information. These are only additional information that can help you to...
@songmingl No. The ligand.symbol or receptor.symbol information will be not used in any CellChat's analysis. You can check the l-r pairs contained in IL2 signaling.
@songmingl Thanks. This is indeed a typo in the human database. Will update it later today. Yes, you can use `gene.up
@ashishjain1988 Thanks for bringing it out and we now update this function.