Latest scvi-tools topics

Topic	Replies	Views	Activity
About the scvi-tools category For questions about using scvi-tools.	2	1175	March 4, 2022
Predict cell type with scANVI for spatial transcriptomics data (Xenium) scanvi , integration , scvi	0	3	November 18, 2025
Question about complex experiment multivi , scrna-seq , integration , scvi , diff-exp	0	10	November 14, 2025
Training not using the full GPU scvi	3	27	November 10, 2025
How to use totalVI denoised protein measurements totalvi	1	24	November 9, 2025
Question about get_normalized_expression computation scvi , totalvi	3	50	November 5, 2025
Batch key and categorical variables for get_normalized_expression()	2	66	November 4, 2025
Excluding Ig and ribosomal genes from HVG selection in scVI, best practice? clustering , scvi , integration	1	54	October 22, 2025
Potential bug in scvi.model.TOTALVI.setup_mudata	2	36	October 10, 2025
Loss_z1_weight and loss_z1_unweight in scANVI scanvi	2	481	October 8, 2025
Is Gaussian mixture VAE implemented in scVI-tools?	3	53	September 25, 2025
Preprocess of scATAC use for peakVI or MultiVI	5	126	September 3, 2025
Using ResolVI’s Unsupervised Mode for Cell Annotation	7	142	August 26, 2025
Get_normalized_expression causes my kernel to disconnect scanvi	1	33	August 19, 2025
How to Correct for Intra-Organ Batch Effects Without Removing Inter-Organ Differences? integration	6	81	August 5, 2025
Conduct SCANVI after running SysVI on multi-platform data	3	48	August 3, 2025
Unexpected DE test results in scvi version 1.3.0 (as compared with version 1.1.2)	15	292	July 31, 2025
Implementing Warmup to a component based on epoch scvi	2	48	July 31, 2025
Error when trying to use scvi.model.SCANVI.from_scvi_model	7	294	July 22, 2025
Problems with Bayes factors and LFC changes using model.differential_expression() diff-exp	8	256	July 9, 2025
Wrong log-fold change estimation? diff-exp	3	75	July 9, 2025
Discrepancy between raw mean/non-zero proportion and LFC with model.differential_expression totalvi	2	62	July 10, 2025
Does MultiVI support using tile matrix directly instead of peak calling for ATAC input? multivi , scvi	2	65	July 9, 2025
The best practice for detecting differential gene expression between 2 types of samples	4	1011	July 9, 2025
Documentation for training with multiple GPUs	5	381	July 9, 2025
Shared cell types not mixing when integrating datasets from different species scvi , integration	4	151	June 19, 2025
SMART-seq and MARS-seq pipelines integration	1	68	June 19, 2025
Workflow advice for totalVI in CITE-seq Multiplexed data totalvi	3	87	June 19, 2025
Domain adaptation to pre-train batch correction model using paired data developer , integration , scvi	12	172	May 27, 2025
Amortized LDA Topic Modeling - picking the right number of topics	8	153	June 4, 2025