Topics tagged scrna-seq

Topic	Replies	Views	Activity
Confused by percent_top purpose in scanpy.pp.calculate_qc_metrics scanpy scrna-seq , preprocessing	2	124	August 19, 2026
Is older advice for estimating optimal number of epochs for model training of scVI still recommended? scvi-tools scrna-seq , scvi	6	278	March 1, 2026
[Tool] scVAE-Annotator: Automated Cell Type Annotation for scRNA-seq with VAE and Adaptive Marker Discovery scRNA-seq scrna-seq	7	271	February 4, 2026
Remove ribosomal genes driving variation (on PC plot)? scanpy scrna-seq , gene-selection	0	82	December 17, 2025
Question about complex experiment scvi-tools scrna-seq , integration , diff-exp , scvi , multivi	1	143	November 25, 2025
Posterior probability interpretability (soft=True) scanpy scrna-seq , scanvi	1	128	September 25, 2025
What kind of data type does infercnvpy need as input? Help scrna-seq , integration	0	97	November 27, 2024
Is it possible to add extra covariate categories to a trained SCVI model? scvi-tools scrna-seq , integration , scanvi , scvi	3	268	October 4, 2024
ZeroDivisionError using scvi-tools scvi-tools scrna-seq , scatac-seq	15	498	September 23, 2024
Handling Non-Matching Categorical Labels in scArches scArches scrna-seq , scarches	0	82	September 13, 2024
Can I use the package scib-metrics on methods that don't output an embedding? Help scrna-seq , integration	6	696	August 31, 2024
Benchmarking CellHint with scib-metrics Benchmarker tool how to use embedding_obsm_keys Help scrna-seq , integration , scanvi , scvi	1	274	April 25, 2024
Access to each training example's original index in the input Anndata object scvi-tools scrna-seq , integration , scvi , developer	0	165	March 12, 2024
Is it possible only to calculate metrics related to cell type using scib? Help scrna-seq	1	316	August 15, 2023
Could not find function "scvi.model.SCVI.setup_anndata" scvi-tools scrna-seq , integration , scvi	0	533	July 29, 2023
Show cluster numbers on scanpy UMAP plot like in Featureplot in Seurat scanpy scrna-seq , plotting	5	3272	June 16, 2023
Plotting scanpy.tl.score_genes() value using scanpy.pl.stacked_violin() scanpy scrna-seq	1	1528	November 4, 2022
How to concatenate anndata properly? anndata scrna-seq , integration , scvi	2	9427	November 3, 2022
How does one generate a DotPlot with scaled values? scanpy scrna-seq , plotting	0	999	August 29, 2022
Error in highly variable gene selection scanpy scrna-seq , gene-selection	8	4643	March 21, 2022
Gene filtering prior to batch correction scRNA-seq scrna-seq , integration	2	931	July 9, 2021
Minimum Cluster Size? scRNA-seq scrna-seq	2	618	July 8, 2021