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CellFlow as a training framework vs pretrained model
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1
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36
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December 5, 2025
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Draw_graph results in a cloud or nice PAGA-like structure depending on dataset?
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0
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49
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December 4, 2025
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Limited cell types in reference dataset for scANVI
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3
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64
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December 4, 2025
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Seeking guidance and reviewers for AnnData HTML representation PR (#2236)
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2
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35
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December 1, 2025
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Corrected count for resolvi
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1
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121
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November 25, 2025
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Question about complex experiment
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1
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91
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November 25, 2025
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Loss_z1_weight and loss_z1_unweight in scANVI
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3
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548
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November 25, 2025
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Inquiry Regarding DRVI Model Compatibility with scANVI for Embedding Optimization?
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1
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66
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November 25, 2025
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Spatialdata.aggregate, image and segmentation_mask have different shape, but aligned in 'global'
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4
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139
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November 21, 2025
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.raw. car_names reassignation
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2
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47
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November 20, 2025
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Sc.tl.ingest over representing rare cell types in spatial transcriptomics data
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0
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72
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November 18, 2025
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Training not using the full GPU
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3
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100
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November 10, 2025
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Impact of scaling on clustering results and controlling minimum cluster size in Leiden clustering
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1
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185
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November 10, 2025
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How should I process the data after removing low-quality cell clusters?
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0
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75
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November 9, 2025
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How to use totalVI denoised protein measurements
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1
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74
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November 9, 2025
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Rank_genes_groups expects log data but default to adata.raw, why?
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0
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128
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November 7, 2025
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Convert Scanpy (h5ad) to Seurat (rds)
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10
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18588
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November 6, 2025
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Question about get_normalized_expression computation
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3
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135
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November 5, 2025
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Batch key and categorical variables for get_normalized_expression()
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2
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153
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November 4, 2025
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Same scVI model with different values on mac silicon and linux?!
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1
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64
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November 4, 2025
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Question about implementation of highly_variable_genes
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0
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65
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November 3, 2025
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Calculate gene signature scores from cell2location-deconvolved spatial transcriptomics
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0
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35
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October 22, 2025
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Pathway quantification with decoupler - questions on the possible inputs
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3
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161
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October 22, 2025
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Excluding Ig and ribosomal genes from HVG selection in scVI, best practice?
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1
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177
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October 22, 2025
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Potential bug in scvi.model.TOTALVI.setup_mudata
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2
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56
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October 10, 2025
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Changing the order of the anndata objects in anndata.concat changes the leiden clustering
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6
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181
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October 9, 2025
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Infercnvpy | get positional information for bins
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0
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47
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October 7, 2025
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Help with package setup
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2
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55
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October 7, 2025
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How to use scib benchmark-metrics evaluate the adata after BBKNN integretion
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3
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153
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October 7, 2025
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Is Gaussian mixture VAE implemented in scVI-tools?
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3
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93
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September 25, 2025
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