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mudata muon decoupler pertpy Rapids-singlecell anndata scvi-tools For questions about using scvi-tools. squidpy scirpy For questions about scirpy and single-cell T-cell and B-cell receptor analysis in general. spatialdata scanpy For questions about using scanpy.

Topic		Replies	Views	Activity
About the Help category Help		0	600	March 4, 2022
Is squidpy co_occurrence metric symmetric? squidpy		1	70	June 10, 2026
CytoVI took more than 24 hours to train Help		6	190	June 10, 2026
Help with cellrank2 macrostates (multiple conditions design) Help		3	44	June 8, 2026
Confusion on "no IR" definition in scirpy scirpy		2	31	May 26, 2026
Choosing number of latent variables scvi-tools		3	39	May 26, 2026
Multiple coordinate systems spatialdata		2	26	May 26, 2026
Grouping/merging CosMx FOVs into cores in SpatialData spatialdata napari		6	48	May 26, 2026
Unable to save subset spatialdata to zarr spatialdata		1	24	May 21, 2026
Render_points super pixelized after subsetting SpatialData spatialdata		2	28	May 21, 2026
Getting normalized expression scvi-tools integration , diff-exp , scvi		13	90	May 13, 2026
Using curated marker genes together with HVGs for scVI feature selection in adult skeletal muscle snRNA-seq scvi-tools		1	36	May 12, 2026
Using ResolVI’s Unsupervised Mode for Cell Annotation scvi-tools		9	522	May 7, 2026
Implementation of PROGENy pathway analysis decoupler		2	41	May 1, 2026
Integration challenges in a multi-dataset single cell type maturation atlas scvi-tools scvi		2	40	April 24, 2026
MrVI input and interpretation scvi-tools		28	1814	April 23, 2026
ResolVI Corrected Counts for Segmented Visium HD Data scvi-tools scvi		3	74	April 23, 2026
Correct way to run SOLO for doublet detection scvi-tools scvi , solo , doublets		2	51	April 23, 2026
Mapping 10X Xenium 5k data to scRNA-seq reference scvi-tools integration		3	63	April 23, 2026
PeakVI preprocessing for multi-timepoint scATAC-seq when peak coordinates differ slightly across samples scvi-tools peakvi		2	35	April 23, 2026
Interpreting decoupler results decoupler		1	39	April 16, 2026
Running scCODA with confounding covariate pertpy		0	17	April 15, 2026
MRVI Jax Error "Invalid component distribution" scvi-tools integration		3	33	April 13, 2026
Client.restart errors for dask cuda clusters (pooled mode rapids) Rapids-singlecell		0	19	April 10, 2026
Filter_by_expr parameters Decoupler decoupler		4	56	April 8, 2026
Impact of tmin parameter (decoupler.mt.ulm) decoupler		1	23	April 6, 2026
Multi-threading support in decoupler decoupler		1	56	April 6, 2026
CPU memory usage in multi-GPU training scvi-tools		6	71	April 4, 2026
How to use GPU partitions (MIGs)? Help scvi , gpu		1	31	March 28, 2026
Unstable result scvi-tools scvi		2	354	March 27, 2026