balthasar0810
balthasar0810
Hello, just a few beginner's questions: (0. I am using a bam file with molecular barcode in XM and cell barcode in XC. This is ok I guess?) 1. How...
Hello, sorry if this might be a trivial question. I saved my Seurat object without problems to an h5ad file following: https://mojaveazure.github.io/seurat-disk/articles/convert-anndata.html. Also importing it into python using scanpy, no...
Hi! I am trying to run an analysis on a subset of cells from a large Xenium object: > spat An object of class Seurat 541 features across 1580150 samples...
Dear all, I would like to calculate a diffusion map with Gaussian kernels of various sigma with the full probability matrix (every cell to every cell). So, NO k nearest...
Hello! One question about the interpretation of the results from RCTD:  I am not sure how to interpret this. 1. Which cell type assignement is confident? Only spot_class "singlet"?...
Dear all, sorry for this potential trivial question. But: > RunNMF(spat, features = NULL, nfactors = 20, rescale = TRUE, reduction.name = "NMF") Error in loadNamespace(x) : there is no...