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502 Open 1,250 Closed
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Issues list

Documentation typo for scanpy.pp.filter_cells
#3332 opened Oct 30, 2024 by fionaEyoung
ValueError: Output dtype not compatible with inputs. Bug 🐛 Triage 🩺 This issue needs to be triaged by a maintainer
#3331 opened Oct 30, 2024 by ianfd
2 of 3 tasks
1
Feature Request: Option to Plot Highest Absolute Values on Top in sc.pl.umap Area - Plotting 🌺 Enhancement ✨
#3326 opened Oct 25, 2024 by tobias-zehnder
scanpy.pl.stacked_violin - remove "marker label" whitespace if var_names is a list of genes Area - Plotting 🌺 Bug 🐛
#3320 opened Oct 24, 2024 by adkinsrs
3 tasks done
6
Multibatchnorm / between library batch normalization Enhancement ✨ Triage 🩺 This issue needs to be triaged by a maintainer
#3309 opened Oct 23, 2024 by Marwansha
negative values after score_genes with log1P or counts layer
#3297 opened Oct 20, 2024 by Li-ZhiD
Gearys C and Morans I As Public API Enhancement ✨
#3291 opened Oct 17, 2024 by ilan-gold
@Intron7
Plotting colors from obsm Enhancement ✨ Triage 🩺 This issue needs to be triaged by a maintainer
#3277 opened Oct 10, 2024 by canergen
ScanPy's BSD license and GPLed dependencies Question
#3272 opened Oct 1, 2024 by PertuyF
1
sc.tl.score_genes -- ValueError: No valid genes were passed for scoring Bug 🐛 Triage 🩺 This issue needs to be triaged by a maintainer
#3266 opened Sep 26, 2024 by xyang2uchicago
3 tasks done
AttributeError: Can only use .str accessor with string values! Bug 🐛 Needs info❔ More information needed
#3261 opened Sep 26, 2024 by DUAN-GAO
2 of 3 tasks
3
Add scran nomalisation into scanpy Area – Preprocessing 🧼 Enhancement ✨
#3255 opened Sep 23, 2024 by le-ander
2
io submodule from anndata Enhancement ✨
#3245 opened Sep 20, 2024 by ilan-gold
1 of 3 tasks
Why making feature names unique instead of aggregation? Enhancement ✨ Question
#3241 opened Sep 18, 2024 by VladimirShitov
6
pbmc68k_reduced raw counts
#3224 opened Sep 4, 2024 by MartaBenegas
rank_genes_groups fails to account for multiple comparsions when multiple groups are provided. Bug 🐛 Triage 🩺 This issue needs to be triaged by a maintainer
#3221 opened Sep 2, 2024 by a93sokol
3 tasks done
AttributeError: 'ColormapRegistry' object has no attribute 'get_cmap' Area - Plotting 🌺 Bug 🐛 Needs info❔ More information needed
#3215 opened Aug 29, 2024 by imraanGit
2 of 3 tasks
2
Umap parallel Enhancement ✨
#3211 opened Aug 20, 2024 by Intron7
1
@Intron7
Rank_genes_groups -> does not return Axes Area - Plotting 🌺 Enhancement ✨
#3205 opened Aug 12, 2024 by dansteiert
3 tasks done
2
Depend on session-info2 Enhancement ✨
#3202 opened Aug 8, 2024 by flying-sheep
@flying-sheep
1
sc.tl.dendrogram no longer(?) works in backed mode Area - Out of core 💾 Working with on disk data Area - Plotting 🌺 Bug 🐛
#3199 opened Aug 6, 2024 by flying-sheep
2 of 3 tasks
1
1
Don't prepend "X_" Area – API API design breaking change ‼️
#3188 opened Aug 1, 2024 by flying-sheep
ingest confidence thresholding Area - Topology 🍩 Neighbor graphs Enhancement ✨
#3160 opened Jul 22, 2024 by sakatash
2
Enhance scanpy.tl.rank_gene_groups with additional filters (min_pct, etc.,) Area – Differential Expression Differential expression Enhancement ✨
#3159 opened Jul 17, 2024 by osmanmerdan
1
Investigate Array API usage in scanpy codebase Enhancement ✨ Needs info❔ More information needed RFC/ Discussion For discussing proposed changes
#3136 opened Jul 2, 2024 by ilan-gold
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