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Issues: scverse/scanpy

Rename master -> main
#2869 by ivirshup was closed Feb 23, 2024
Closed 4
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Issues list

sc.pp.neighbors error: api_export.__init__() got an unexpected keyword argument 'metaclass' Bug 🐛 Triage 🩺 This issue needs to be triaged by a maintainer
#3143 by Rafael-Silva-Oliveira was closed Jul 4, 2024
2 of 3 tasks
A neighbors error Bug 🐛 Upstream
#3141 by fengchuiguo1994 was closed Jul 5, 2024
2 of 3 tasks
1
AttributeError (sc.pl.stacked_violin) Bug 🐛 Triage 🩺 This issue needs to be triaged by a maintainer
#3140 by JelenaKrneta was closed Jul 3, 2024
2 of 3 tasks
1
A umap warning Bug 🐛 Upstream
#3139 by fengchuiguo1994 was closed Jul 5, 2024
2 of 3 tasks
1
Numpy 2 support (unpin) Enhancement ✨
#3114 by flying-sheep was closed Jul 2, 2024 1.10.3
1
@flying-sheep
Scatterplot with color for categorical value outputs attribute error about legend Bug 🐛
#3102 by albert239825 was closed Jun 13, 2024
3 tasks done
6
scanpy.pl.spatial plotting square pixels Question Triage 🩺 This issue needs to be triaged by a maintainer
#3096 by HaikuoLi was closed Jun 7, 2024
1
scanpy legacy and not legacy about scale Question
#3095 by asmlgkj was closed Jun 7, 2024
2 of 3 tasks
2
Broken zappy tests Area - Out of core 💾 Working with on disk data Bug 🐛
#3087 by flying-sheep was closed Jun 3, 2024
2 of 3 tasks
1
@flying-sheep
OSError between tissue_positions_list.csv and tissue_positions.csv Bug 🐛
#3085 by alexanderchang1 was closed Jun 7, 2024
2 of 3 tasks
1
Pre-release jobs fail because scipy removed .A from csr/csc matrices Bug 🐛
#3083 by flying-sheep was closed Jun 3, 2024
2 of 3 tasks
1
I have always had a question: do I need to scale my adata before running sc.tl.score_genes? Question
#3080 by christophechu was closed Jun 7, 2024
3 tasks done
1
Only show the genes that have significant statistics Enhancement ✨
#3077 by ngvananh2508 was closed Jun 7, 2024
2
AttributeError: 'Ingest' object has no attribute '_pca_use_hvg' Bug 🐛 Triage 🩺 This issue needs to be triaged by a maintainer
#3074 by siebrenf was closed Jun 3, 2024
2 of 3 tasks
1.10.2
2
@ilan-gold
error in readwrite.py Bug 🐛 Triage 🩺 This issue needs to be triaged by a maintainer
#3071 by JonatanSahar was closed May 20, 2024
2 of 3 tasks
1
Wrongly ordered DotPlot totals in scanpy 1.10.1 with Pandas 1.x Area - Plotting 🌺 Bug 🐛
#3062 by rgoya was closed Jun 17, 2024
2 of 3 tasks
1
@flying-sheep
3
More complete dataset documentation Area - Documentation 📒 Enhancement ✨
#3051 by flying-sheep was closed Jun 4, 2024
1
2
will rank_genes_groups_dotplot support results from filter_rank_genes_groups? Area - Documentation 📒
#3049 by Li-ZhiD was closed May 13, 2024
4
When importing Scanpy 1.9.1, if you're using matplotlib version below 3.7, you might encounter a metaclass error. Bug 🐛
#3029 by 12hsk was closed Apr 25, 2024
3 tasks done
5
sc.tl.leiden with flavor='igraph' raises an (ignored by igraph) “ValueError: high is out of bounds for int32” Area – Reproducibility Exact replication Bug 🐛 Needs info❔ More information needed
#3028 by hl324 was closed May 2, 2024
2 of 3 tasks
6
Unexplainable sc.pp.highly_variable_genes(subset = True) behavior Bug 🐛
#3027 by jberkh was closed Jun 28, 2024
3 tasks done
1
@eroell
1
AttributeError: module 'scanpy.preprocessing' has no attribute 'scrublet' Bug 🐛
#3026 by bingy007 was closed May 19, 2024
3 tasks done
3
Benchmarks: Add all from basic tutorial benchmark
#3012 by flying-sheep was closed May 14, 2024 1.10.2
1
@flying-sheep
Update Preprocessing functions with numba Area – Performance 🐌 Enhancement ✨
#3011 by Intron7 was closed Apr 23, 2024
2
@Intron7
2
Add a needs triage tag Development Process 🚀 Enhancement ✨
#3010 by ivirshup was closed Apr 30, 2024
1
ProTip! Find all open issues with in progress development work with linked:pr.