YuliaInn

I need to compare the abundance of the cells within cell states between two conditions (anatomical regions). From what I have read so far, I think it is better to...

I have > 60 scRNA-seq samples and did CellChat separately for each of them. For example, patient 1 has three L1_R1 interactions with the following communication probabilities: - of 0.01...

I have 23 samples of scRNA-seq data with similar cell types. When I run cellphonedb without subsampling, for some samples the results (e.g., singificant_means, means) do not have all cell-cell...

KeyError: '0' on the ranking step

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I transferred a Seurat object, so my anndata looks like this: `MU150CDXT_scaled` > AnnData object with n_obs × n_vars = 3841 × 2000 > obs: 'orig.ident', 'nCount_RNA', 'nFeature_RNA', 'percent.mt', 'percent.rb',...

How can I identify factors across species? In the Spectra paper, factors were discovered using an integrated dataset. However, if I have two scRNA-seq datasets from different species that don't...

Hello, I integrated some data using Harmony back in 2022 (on Seurat V4), but I didn’t save the Seurat object at that time. When I needed to perform further analysis,...