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Preprocess of scATAC use for peakVI or MultiVI
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2
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40
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June 19, 2025
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SMART-seq and MARS-seq pipelines
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1
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38
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June 19, 2025
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Workflow advice for totalVI in CITE-seq Multiplexed data
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3
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54
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June 19, 2025
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Regressing out isotype controls
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4
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812
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June 6, 2025
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How can I change the color of the "groupby" labels from a dotplot?
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0
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24
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June 4, 2025
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Domain adaptation to pre-train batch correction model using paired data
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12
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114
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May 27, 2025
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Amortized LDA Topic Modeling - picking the right number of topics
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8
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112
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June 4, 2025
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scVI batch correction clusters all cells from sample in a circle (potential artifact)
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14
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95
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June 3, 2025
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Popv AssertionError: Don’t call _normalize_index with non-categorical/string names
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1
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47
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May 31, 2025
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Macbook M1 M2 mps acceleration with scVI
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9
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1653
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May 30, 2025
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Lazy Loading Anndata backed in Zarr Arrays from Disk
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5
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95
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May 28, 2025
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Efficient pseudobulking
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4
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130
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May 28, 2025
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Unexplained change in UMAP
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3
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74
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May 27, 2025
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Spatialdata.aggregate, image and segmentation_mask have different shape, but aligned in 'global'
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1
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38
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May 26, 2025
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Reference levels Milo pertpy
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2
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26
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May 26, 2025
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Use of raw or log-normalised counts in decoupler-py mt.ulm
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0
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29
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May 26, 2025
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Sc.pp.highly_variable_genes with batch_key causes segmentation fault
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2
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224
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May 26, 2025
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Good spatial tutorial for beginners
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3
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136
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May 21, 2025
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Preprocessing CITE-seq with muon
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0
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23
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May 19, 2025
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Help on MultiVI for data modality
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1
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192
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May 16, 2025
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Protocol for model optimization (currently focused on MultiVI)
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3
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552
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May 14, 2025
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How to interpret reconstruction loss increase but elbo loss decrease on trained scvi and scanvi models
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1
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65
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May 11, 2025
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Convert anndata to seurat (spatial)
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1
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88
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May 9, 2025
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Mu.pp.intersect_obs()
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7
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118
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May 9, 2025
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Do multiple pairwise comparison with scCODA of pertpy
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3
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56
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May 4, 2025
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Nan values in the latent of scanvi_query
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1
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19
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April 23, 2025
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Modify gene identifiers stored in existing scVI model
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1
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31
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April 20, 2025
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Anndata Manager Store
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11
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63
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April 20, 2025
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Scvi package can't be installed into google colab?
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6
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47
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April 20, 2025
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How to retreive the V,D,J gene segment idenifiers and CD3 sequence give a clone_id?
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1
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21
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April 18, 2025
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