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Hello Cell2location team,
When estimating celltype-specific counts per spot, are these counts normalized for the number of cells in each spot? I am interested in quantifying the expression of cells…
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Hi,
I am new to differential expression. I am analysing a single cell dataset with three different conditions and ten cell types. I receive the following error as one cell type in one condition doe…
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Hi authors,
I am wondering what metric could be used to compare the same peak-to-gene linkage across different cell types? According to the tutorial, "the Shapley values converted to z-score are an…
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I tried all three methods to install the CellTypeAnalyzer jar file and I get the following error message:
C:\Users\MARYBR~1\Desktop\Fiji.app\plugins\CellTypeAnalyzer_.jar: java.util.zip.ZipException:…
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Jorstad, Nikolas L., Jennie Close, Nelson Johansen, Anna Marie Yanny, Eliza R. Barkan, Kyle J. Travaglini, Darren Bertagnolli, et al. 2023. “Transcriptomic Cytoarchitecture Reveals Principles of Human…
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When run_de is using de_family = "pseudobulk", it says "Column 'cell_type' is not found.", and when I use de_family = "singlecell", it can be run。
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Dear authors
I recently came across the publication "Epigenetic regulation during cancer transitions across 11 tumor types" and was impressed by the massive scale analysis you have performed.
I…
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Hi @michellemli! Love your work. Is there any way I can find out the corresponding cell type in the provided embeddings on figshare? Or is it safe to assume that it's just the alphabetically sorted li…
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### Is your feature request related to a problem?
Cells are our concept to lazily (i.e. the data must not be loaded immediately) execute vectorized operations on tables. The laziness is essential for…
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- splitting by IF for first round
- spatial update from label transfer results
- plinko
- hierarchical