Cathal King
Cathal King
Thanks for your detailed reply. My colleagues run many experiments per week with Cell Profiler, so, would there be a way to deploy the Shiny app so that my colleagues...
Hi @bmill3r Thank you for your work with this package. I have similar questions to this discussion. In the annotation tutorial it says: "_For demonstration purposes, let’s use the 5...
Hi @csangara . Just checking if there has been any update on this issue?
Have you tried the `pt.size.factor` parameter?
I'm not part of the Seurat team, but what exactly is wrong with your tests? Pt.size.factor will just change the diameter of the spatial spots on the image.
This error (```'x' must be an array of at least two dimensions```) could be to do with the gene x cell count matrix file. The only difference between the one...
Hi @zezhuo Thanks so much for your message. Can you show me an example of how you did that? Did you do it in R?
@teng-gao I believe singularity can operate on a Docker image in the same way. When I run some initial checks on the container it seems to contain all the necessary...
Hi @teng-gao, just following up on this. Have you had any chance to take a look at this error? Thanks
FYI, ```SpatialExperimentIO::readXeniumSXE()``` will form an SPE from 10x Xenium data. However, I am not sure if that would work with this package. If I construct my SPE manually (with count...