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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

How to get Louvain clustering labels from adata/scanpy
#144 by fbrundu was closed May 4, 2018
3
faster mean, variance for computing dispersion
#163 by fidelram was closed Jan 24, 2021
4
Fix tests
#162 by flying-sheep was closed May 25, 2018
3
Jupyter notebook import scanpy.api
#160 by TamaraO was closed May 25, 2018
5
Where can I find log-fold change in gene expression for the markers
#159 by DoruMP was closed Jan 24, 2021
10
error in scanpy first tutorial
#158 by ghost was closed Jul 11, 2018
9
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
3 tasks done
1
writeread module does not write to loom format
#154 by oliviamr was closed May 15, 2018
6
Recipes with plotting option throw import error
#153 by ivirshup was closed May 16, 2018
3
dpt didn't create a 'dpt_pseudotime' obs
#150 by chriscainx was closed May 7, 2018
3
Fail to install scanpy by pip
#148 by ttgump was closed Nov 13, 2019
3
Loading from .h5ad taking much more memory than loading same dataset from 10x .h5
#146 by ivirshup was closed Dec 3, 2018
4
Filename prefix
#145 by fbrundu was closed May 4, 2018
2
diffusion map "sigma"
#120 by ghost was closed Apr 11, 2018
6
could not install louvain via conda
#143 by goldfish500 was closed May 4, 2018
1
DCA integration
#142 by gokceneraslan was closed Jul 2, 2018
2
SettingWithCopyWarning on rank_genes_groups_violin()
#140 by fbrundu was closed May 7, 2018
2
igraph problems
#138 by fbrundu was closed May 1, 2018
7
How to create a panel of plots when using, for example, tsne
#137 by fbrundu was closed Jan 24, 2021
6
Systematic chunk processing
#135 by falexwolf was closed Nov 5, 2019
read_10x_h5 errors
#132 by Fougere87 was closed Apr 30, 2018
2
sc.pl.violin ylabel and title
#127 by davidsebfischer was closed Jan 24, 2021
2
[tl.diffmap] ValueError: Can only assign an array of same length (43570), not of length 2056.
#123 by chriscainx was closed Jul 11, 2018
2
Filtering cells with a high % of reads mapping to genes in the mitochondrial genome
#122 by P4sm was closed Jan 24, 2021
3
AxisError when pp.normalize_per_cell
#121 by chriscainx was closed Apr 15, 2018
2
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