About the Help category
|
|
0
|
558
|
March 4, 2022
|
Amortized LDA Topic Modeling - picking the right number of topics
|
|
7
|
64
|
June 3, 2025
|
scVI batch correction clusters all cells from sample in a circle (potential artifact)
|
|
14
|
56
|
June 3, 2025
|
Popv AssertionError: Don’t call _normalize_index with non-categorical/string names
|
|
1
|
14
|
May 31, 2025
|
Macbook M1 M2 mps acceleration with scVI
|
|
9
|
1536
|
May 30, 2025
|
Discrepancy between raw mean/non-zero proportion and LFC with model.differential_expression
|
|
0
|
7
|
May 29, 2025
|
Problems with Bayes factors and LFC changes using model.differential_expression()
|
|
6
|
96
|
May 28, 2025
|
Lazy Loading Anndata backed in Zarr Arrays from Disk
|
|
5
|
55
|
May 28, 2025
|
Efficient pseudobulking
|
|
4
|
72
|
May 28, 2025
|
Unexplained change in UMAP
|
|
3
|
43
|
May 27, 2025
|
Domain adaptation to pre-train batch correction model using paired data
|
|
12
|
80
|
May 27, 2025
|
Spatialdata.aggregate, image and segmentation_mask have different shape, but aligned in 'global'
|
|
1
|
26
|
May 26, 2025
|
Sc.pp.highly_variable_genes with batch_key causes segmentation fault
|
|
2
|
203
|
May 26, 2025
|
Good spatial tutorial for beginners
|
|
3
|
95
|
May 21, 2025
|
Unexpected DE test results in scvi version 1.3.0 (as compared with version 1.1.2)
|
|
9
|
87
|
May 19, 2025
|
Preprocessing CITE-seq with muon
|
|
0
|
10
|
May 19, 2025
|
Help on MultiVI for data modality
|
|
1
|
176
|
May 16, 2025
|
Protocol for model optimization (currently focused on MultiVI)
|
|
3
|
531
|
May 14, 2025
|
How to interpret reconstruction loss increase but elbo loss decrease on trained scvi and scanvi models
|
|
1
|
32
|
May 11, 2025
|
Convert anndata to seurat (spatial)
|
|
1
|
40
|
May 9, 2025
|
Mu.pp.intersect_obs()
|
|
7
|
97
|
May 9, 2025
|
Nan values in the latent of scanvi_query
|
|
1
|
16
|
April 23, 2025
|
Modify gene identifiers stored in existing scVI model
|
|
1
|
24
|
April 20, 2025
|
Anndata Manager Store
|
|
11
|
45
|
April 20, 2025
|
Scvi package can't be installed into google colab?
|
|
6
|
33
|
April 20, 2025
|
How to retreive the V,D,J gene segment idenifiers and CD3 sequence give a clone_id?
|
|
1
|
15
|
April 18, 2025
|
Workflow advice for totalVI in CITE-seq Multiplexed data
|
|
1
|
22
|
April 17, 2025
|
Is the scVI model applicable to bulk RNA-seq data from cell lines?
|
|
1
|
38
|
April 16, 2025
|
Memory Usage in multiple New Formats
|
|
0
|
23
|
April 13, 2025
|
Best Practices for Multi-Panel Figures
|
|
0
|
34
|
April 11, 2025
|