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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TotalVI duplicate label on axis error while running differential_expression after model training

#3052 HChungLab closed 6 hours ago
1
feat: METHYLVI retrieve normalized methylation levels for specific context

#3051 ethanweinberger opened 1 day ago
1
Backport PR #3044 on branch 1.2.x (feat: Add variance to ZINB model)

#3050 meeseeksmachine closed 2 days ago
1
Backport PR #3045 on branch 1.2.x (feat(external): adding batch_key and labels_key)

#3049 meeseeksmachine closed 3 days ago
1
Backport PR #3036 on branch 1.2.x (fix(train): in case of last batch <=2, move to validation if possible)

#3048 meeseeksmachine closed 3 days ago
1
Multi-GPU fails when using ConcatDataLoader

#3047 absudabsu opened 4 days ago
1
[pre-commit.ci] pre-commit autoupdate

#3046 pre-commit-ci[bot] closed 3 days ago
1
feat(external): adding batch_key and labels_key

#3045 mys721tx closed 3 days ago
1
feat: Add variance to ZINB model

#3044 rvinas closed 2 days ago
4
Backport PR #3042 on branch 1.2.x (docs: fix RTD source links)

#3043 meeseeksmachine closed 1 week ago
1
docs: fix RTD source links

#3042 ori-kron-wis closed 1 week ago
1
Backport PR #3037 on branch 1.2.x ([pre-commit.ci] pre-commit autoupdate)

#3041 meeseeksmachine closed 1 week ago
1
Backport PR #3030 on branch 1.2.x (Update _base_components.py)

#3040 meeseeksmachine closed 1 week ago
1
feat: TOTALVI & MULTIVI Mudata Minification

#3039 ori-kron-wis opened 1 week ago
0
feat: Mudata support for MultiVI

#3038 ori-kron-wis opened 2 weeks ago
1
[pre-commit.ci] pre-commit autoupdate

#3037 pre-commit-ci[bot] closed 1 week ago
1
fix(train): in case of last batch <=2, move to validation if possible

#3036 ori-kron-wis closed 3 days ago
1
Training fails with mini-batch size of one sample

#3035 LeonHafner closed 3 days ago
3
Backport PR #3033 on branch 1.2.x ([pre-commit.ci] pre-commit autoupdate)

#3034 meeseeksmachine closed 3 weeks ago
1
[pre-commit.ci] pre-commit autoupdate

#3033 pre-commit-ci[bot] closed 3 weeks ago
1
feat: continuous, embedded covariates re-injected during training

#3032 ori-kron-wis opened 3 weeks ago
4
Problems of torchmetrics

#3031 HelloWorldLTY closed 3 weeks ago
3
Update _base_components.py

#3030 canergen closed 1 week ago
1
KeyError: 'setup_method_name'

#3029 ramadatta closed 1 week ago
1
TOTALVI.train() Model training has an invalid value error

#3028 raozuming closed 1 week ago
3
Backport PR #3026 on branch 1.2.x ([pre-commit.ci] pre-commit autoupdate)

#3027 meeseeksmachine closed 1 month ago
1
[pre-commit.ci] pre-commit autoupdate

#3026 pre-commit-ci[bot] closed 1 month ago
1
Backport PR #3024 on branch 1.2.x ((ci) (test) Updated CUDA test yaml file)

#3025 meeseeksmachine closed 1 month ago
1
(ci) (test) Updated CUDA test yaml file

#3024 ori-kron-wis closed 1 month ago
1
Installation jax related packages errs due to deprecations

#3023 Hrovatin closed 1 month ago
3
Cateorical covariate setup

#3022 Hrovatin closed 1 month ago
3
Inconsistency in covariate injection into layer

#3021 Hrovatin opened 1 month ago
3
Support metric and loss loging on step

#3020 Hrovatin opened 1 month ago
2
AttributeError: 'Poisson' object has no attribute 'mu' in POISSONVI get_accessibility_estimates

#3019 shahrozeabbas closed 1 month ago
1
Support training from `AnnCollection`

#3018 jacobkimmel closed 4 days ago
3
Update pyproject.toml for scverse integration tests

#3017 ori-kron-wis closed 1 month ago
1
Backport PR #3014 on branch 1.2.x ([pre-commit.ci] pre-commit autoupdate)

#3016 meeseeksmachine closed 1 month ago
1
feat: implement Decipher model in external

#3015 justjhong closed 1 week ago
12
[pre-commit.ci] pre-commit autoupdate

#3014 pre-commit-ci[bot] closed 1 month ago
1
Autotune doesn't seem to be able to take learning rate argument anymore

#3013 LinearParadox closed 1 month ago
3
Backport PR #3010 on branch 1.3.x ([pre-commit.ci] pre-commit autoupdate)

#3012 meeseeksmachine closed 1 month ago
1
Backport PR #3010 on branch 1.2.x ([pre-commit.ci] pre-commit autoupdate)

#3011 meeseeksmachine closed 1 month ago
1
[pre-commit.ci] pre-commit autoupdate

#3010 pre-commit-ci[bot] closed 1 month ago
1
Backport PR #3007 on branch 1.2.x (Change outlier detection for MRVI to ball admissibility calculation)

#3009 meeseeksmachine closed 1 month ago
1
scvi.model.PEAKVI.setup_anndata(adata): AttributeError: type object 'PEAKVI' has no attribute 'setup_anndata'

#3008 danli349 closed 1 month ago
3
Change outlier detection for MRVI to ball admissibility calculation

#3007 justjhong closed 1 month ago
3
Backport PR #3005 on branch 1.2.x (docs: automated update of tutorials)

#3006 meeseeksmachine closed 1 month ago
1
docs: automated update of tutorials

#3005 github-actions[bot] closed 1 month ago
0
Backport PR #3003 on branch 1.2.x ([pre-commit.ci] pre-commit autoupdate)

#3004 meeseeksmachine closed 1 month ago
1
[pre-commit.ci] pre-commit autoupdate

#3003 pre-commit-ci[bot] closed 1 month ago
1