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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.tl.filter_rank_genes_groups gene name with NA Area - Documentation 📒
#1446 by jphe was closed Jul 8, 2024 updated Jul 8, 2024
3 tasks
6
Running sc.pp.highly_variable_genes(adata, n_top_genes=5000, flavor='seurat_v3') produces scikit-misc error; package not installable with either pip or conda Question
#3144 by DNApolymerase3 was closed Jul 8, 2024 updated Jul 8, 2024
3 tasks done
1
A umap warning Bug 🐛 Upstream
#3139 by fengchuiguo1994 was closed Jul 5, 2024 updated Jul 5, 2024
2 of 3 tasks
1
A neighbors error Bug 🐛 Upstream
#3141 by fengchuiguo1994 was closed Jul 5, 2024 updated Jul 5, 2024
2 of 3 tasks
1
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 updated Jul 4, 2024
2 of 3 tasks
Score genes - control genes index of wrong format Bug 🐛
#2153 by Hrovatin was closed Jul 4, 2024 updated Jul 4, 2024
1 of 3 tasks
1
@flying-sheep
4
AttributeError (sc.pl.stacked_violin) Bug 🐛 Triage 🩺 This issue needs to be triaged by a maintainer
#3140 by JelenaKrneta was closed Jul 3, 2024 updated Jul 3, 2024
2 of 3 tasks
1
explain title please Question
#1347 by galicae was closed Jul 31, 2020 updated Jul 3, 2024
4
Performance improvements for Regress Out Enhancement ✨
#2781 by dsm-72 was closed Jul 2, 2024 updated Jul 2, 2024
@Intron7
5
Numpy 2 support (unpin) Enhancement ✨
#3114 by flying-sheep was closed Jul 2, 2024 updated Jul 2, 2024 1.10.3
1
@flying-sheep
Issue with tl.pca following scaling Bug 🐛 Closing candidate Issue that can probably be closed Needs info❔ More information needed
#2163 by rgranit was closed Oct 12, 2023 updated Jul 1, 2024
7
Unexplainable sc.pp.highly_variable_genes(subset = True) behavior Bug 🐛
#3027 by jberkh was closed Jun 28, 2024 updated Jun 28, 2024
3 tasks done
1
@eroell
1
Scanorama causing segfault on CI (Python 3.9) Bug 🐛 Development Process 🚀
#2866 by ivirshup was closed Jun 25, 2024 updated Jun 25, 2024
3 tasks done
1
2
Wrongly ordered DotPlot totals in scanpy 1.10.1 with Pandas 1.x Area - Plotting 🌺 Bug 🐛
#3062 by rgoya was closed Jun 17, 2024 updated Jun 17, 2024
2 of 3 tasks
1
@flying-sheep
3
scanpy cannot be imported in my windows system Area - IO Reading and writing Bug 🐛
#1468 by Sophia409 was closed Jun 16, 2024 updated Jun 16, 2024
5
pl.paga_path: input?
#328 by bebatut was closed Jun 16, 2024 updated Jun 16, 2024
1
Scatterplot with color for categorical value outputs attribute error about legend Bug 🐛
#3102 by albert239825 was closed Jun 13, 2024 updated Jun 13, 2024
3 tasks done
6
Above error raised while reading key '/layers' of type <class 'h5py._hl.group.Group'>
#2297 by brianpenghe was closed Feb 18, 2023 updated Jun 12, 2024
14
Differential expression table Question
#1360 by ghost was closed Aug 11, 2020 updated Jun 12, 2024
5
scanpy legacy and not legacy about scale Question
#3095 by asmlgkj was closed Jun 7, 2024 updated Jun 10, 2024
2 of 3 tasks
2
Only show the genes that have significant statistics Enhancement ✨
#3077 by ngvananh2508 was closed Jun 7, 2024 updated Jun 10, 2024
2
plotting overlay of 2 genes on tsne
#912 by koalap-2018 was closed Nov 17, 2019 updated Jun 7, 2024
5
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 updated Jun 7, 2024
1
OSError between tissue_positions_list.csv and tissue_positions.csv Bug 🐛
#3085 by alexanderchang1 was closed Jun 7, 2024 updated Jun 7, 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 updated Jun 7, 2024
3 tasks done
1
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