scverse scvi-tools issues

scverse / scvi-tools

Deep probabilistic analysis of single-cell and spatial omics data

http://scvi-tools.org/

BSD 3-Clause "New" or "Revised" License

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issues

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style: add initial tensor shape typing to vae

#2868 martinkim0 opened 12 hours ago
2
fix(module): address shape mismatch for scanvae loss n_samples

#2867 martinkim0 opened 13 hours ago
0
How to modify scANVI to handle continuous cell labels?

#2866 patricks-lab opened 1 day ago
1
docs: add faq

#2865 martinkim0 closed 1 day ago
1
Backport PR #2863 on branch 1.1.x (docs: add release entry for 1.1.4)

#2864 martinkim0 closed 2 days ago
0
docs: add release entry for 1.1.4

#2863 martinkim0 closed 2 days ago
1
Backport PR #2861 on branch 1.1.x (release: bump version to 1.1.4)

#2862 meeseeksmachine closed 2 days ago
0
release: bump version to 1.1.4

#2861 martinkim0 closed 2 days ago
0
ci: update release workflow

#2860 martinkim0 closed 2 days ago
1
ci: add initial release workflow overhaul

#2859 martinkim0 closed 2 days ago
0
docs: update developer docs

#2858 martinkim0 closed 2 days ago
1
refactor: remove jax usage in data utils

#2857 martinkim0 closed 2 days ago
0
build: specify all direct dependencies in pyproject

#2856 martinkim0 closed 2 days ago
0
Backport PR #2854 on branch 1.1.x (feat: add support for scipy 1.14.0)

#2855 meeseeksmachine closed 2 days ago
0
feat: add support for scipy 1.14.0

#2854 martinkim0 closed 2 days ago
0
Backport PR #2852 on branch 1.1.x (release: update tutorials and 1.1.3 release date)

#2853 martinkim0 closed 2 days ago
0
release: update tutorials and 1.1.3 release date

#2852 martinkim0 closed 2 days ago
1
AttributeError: module 'numpy' has no attribute 'str'.

#2851 klshen8386 closed 3 days ago
4
[pre-commit.ci] pre-commit autoupdate

#2850 pre-commit-ci[bot] closed 3 days ago
1
Error in py_call_impl(callable, call_args$unnamed, call_args$named)

#2849 liuzhuoliang123 closed 5 days ago
2
refactor(autotune): change search space keys spec

#2848 martinkim0 closed 1 week ago
1
refactor(data): remove jax usage for data check

#2847 martinkim0 closed 2 days ago
0
Backport PR #2841 on branch 1.2.x ([pre-commit.ci] pre-commit autoupdate)

#2846 martinkim0 closed 1 week ago
1
Backport PR #2843 on branch 1.1.x (build: upper bound numpy 2.0)

#2845 martinkim0 closed 1 week ago
1
Backport PR #2843 on branch 1.2.x (build: upper bound numpy 2.0)

#2844 meeseeksmachine closed 1 week ago
0
build: upper bound numpy 2.0

#2843 martinkim0 closed 1 week ago
2
feat: support numpy 2.0

#2842 martinkim0 opened 1 week ago
2
[pre-commit.ci] pre-commit autoupdate

#2841 pre-commit-ci[bot] closed 1 week ago
1
Discussion thread: New DestVI model that supports Visium HD (single-cell spatial transcriptomics) data - Timeline, releases and alternatives

#2840 Rafael-Silva-Oliveira closed 1 week ago
2
Specifying cell types in the new MRVI tool

#2839 jindalk closed 2 weeks ago
1
Question about the output of scVI and scANVI

#2838 ngvananh2508 closed 2 weeks ago
2
CellAssign tensor size error

#2837 andrewjkwok opened 2 weeks ago
0
Trying to run PeakVI model returns mpi4py error

#2836 Sun-storm opened 2 weeks ago
1
[pre-commit.ci] pre-commit autoupdate

#2835 pre-commit-ci[bot] closed 2 weeks ago
1
Implement methylVI

#2834 ethanweinberger opened 2 weeks ago
1
Exception has occurred: ImportError cannot import name 'REGISTRY_KEYS' from 'scvi'

#2833 Rafael-Silva-Oliveira closed 2 weeks ago
3
Backport PR #2831 on branch 1.2.x (feat(autotune): add support for ray 2.24)

#2832 meeseeksmachine closed 2 weeks ago
0
feat(autotune): add support for ray 2.24

#2831 martinkim0 closed 2 weeks ago
1
Expected value argument (Parameter of shape (7150,)) to be within the support (Real()) of the distribution Normal(loc: torch.Size([7150]), scale: torch.Size([7150])), but found invalid values: Parameter containing: tensor([nan, nan, nan, ..

#2830 Rafael-Silva-Oliveira opened 3 weeks ago
9
Backport PR #2828 on branch 1.2.x (fix(external): add save load mrvi tests and fix pickling)

#2829 meeseeksmachine closed 3 weeks ago
0
fix(external): add save load mrvi tests and fix pickling

#2828 martinkim0 closed 3 weeks ago
1
Backport PR #2578 on branch 1.2.x (Reference mapping with MuData-based models)

#2827 meeseeksmachine closed 3 weeks ago
0
compute DE+ and DE- separately

#2826 LevyNat opened 3 weeks ago
3
Backport PR #2824 on branch 1.2.x (docs: remove left nav icons)

#2825 meeseeksmachine closed 3 weeks ago
0
docs: remove left nav icons

#2824 martinkim0 closed 3 weeks ago
1
Backport PR #2822 on branch 1.2.x (refactor: remove unused file)

#2823 meeseeksmachine closed 3 weeks ago
0
refactor: remove unused file

#2822 martinkim0 closed 3 weeks ago
0
[pre-commit.ci] pre-commit autoupdate

#2821 pre-commit-ci[bot] closed 3 weeks ago
1
Error computing posterior predictive check `calibration_error`

#2820 jpintar closed 2 weeks ago
1
Release 1.1.3

#2819 martinkim0 closed 2 days ago
0