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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

Numpy 2 support (unpin) Enhancement ✨
#3114 by flying-sheep was closed Jul 2, 2024 1.10.3
1
@flying-sheep
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
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
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
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
Unexplainable sc.pp.highly_variable_genes(subset = True) behavior Bug 🐛
#3027 by jberkh was closed Jun 28, 2024
3 tasks done
1
@eroell
1
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
AxisError when calculating QC metrics on backed data Bug 🐛
#3004 by dn-ra was closed May 21, 2024
2 of 3 tasks
1
@ilan-gold
1
Tests fail with pytest 8.1 when a data dir exists Bug 🐛
#2993 by ivirshup was closed Apr 29, 2024
1 task
1.10.2
2
13
sc.get.aggregate looses values Bug 🐛
#2964 by grst was closed Mar 27, 2024
2 of 3 tasks
1.10.1
1
4
scale for sparse matrixes and mask Area – Performance 🐌 Enhancement ✨
#2941 by Intron7 was closed Apr 8, 2024 1.10.1
1
@Intron7
FutureWarning for the 1.11 to begin the process of switching leiden backend Area – API API design
#2935 by ilan-gold was closed Mar 25, 2024 1.10.0
1
@ivirshup
1
Docs for aggregate are incorrect Area - Documentation 📒 Bug 🐛
#2931 by ivirshup was closed Mar 19, 2024
1
Return type of aggregate is inconsistent Area – API API design Bug 🐛
#2930 by ivirshup was closed Mar 25, 2024 1.10.0
1
5
aggregate throws error when aggregating obsm or varm Bug 🐛
#2929 by ivirshup was closed Mar 22, 2024
3 tasks done
1.10.0
1
scale max value only cuts high values Bug 🐛
#2912 by Intron7 was closed Mar 14, 2024
3 tasks done
1
Add layer argument to score_genes()/score_genes_cell_cycle() Area – API API design Enhancement ✨
#2910 by lazappi was closed Jun 5, 2024 1.11.0
1
@flying-sheep
1
Dask update causing CI failures Bug 🐛 Upstream
#2902 by ivirshup was closed Mar 14, 2024
1
1
Out of Memory filtering returns TypeError Bug 🐛
#2894 by fratajcz was closed May 21, 2024
2 of 3 tasks
1
@ilan-gold
1
Inconsistent array types from sc.get.aggregate Area – API API design Bug 🐛
#2892 by ivirshup was closed Mar 6, 2024
3 tasks done
1.10.0
1
4
Leiden and louvain params not saved to matching key_added key in uns dictionary Bug 🐛
#2887 by theJasonFan was closed Mar 18, 2024
3 tasks done
1
scanpy 1.10.0rc1 breaks anndata pre-release tests Bug 🐛
#2878 by ivirshup was closed Feb 23, 2024
3 tasks done
1.10.0
1
@flying-sheep
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