scRNA-seq: Scanpy + AnnData - 文集

31篇文章 · 7776字 · 1人关注

读取和存储 .loom 文件
读取 .loom 文件：sc.read_loom() 存储.loom 文件：anndata.write_loom(, write_obsm_va...

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sc.pp.sample()
https://scanpy.readthedocs.io/en/stable/generated/scanpy.pp.sample.html#...

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sc.pl.violin()
sc.pl.violin()https://scanpy.readthedocs.io/en/stable/generated/scanpy.p...

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sc.pl.matrixplot()
sc.pl.matrixplot()https://scanpy.readthedocs.io/en/stable/generated/scan...

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sc.pl.dotplot()
sc.pl.dotplot()https://scanpy.readthedocs.io/en/stable/generated/scanpy....

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sc.pl.tsne()
sc.pl.tsne()https://scanpy.readthedocs.io/en/stable/api/generated/scanpy...

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Scanpy: merge
将两个 Scanpy object merge 在一起 objects_for_merge=[scanpy_object_used_1, sca...

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Scanpy: 细胞周期分析
sc.tl. score_genes_cell_cyclehttps://scanpy.readthedocs.io/en/stable/gen...

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Scanpy: 差异表达分析
Scanpy 中对两个 cluster 进行差异表达分析sc.tl.rank_genes_groups(adata, groupby="lei...

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