scanpy_plus package

Subpackages

• scanpy_plus.data package
  • Submodules
    • scanpy_plus.data.load module
      • load_skin()
• scanpy_plus.io package
  • Submodules
    • scanpy_plus.io.adata_split module
      • read_adata_split()
      • write_adata_split()
    • scanpy_plus.io.boot module
      • pull()
      • push()
• scanpy_plus.pl package
  • Submodules
    • scanpy_plus.pl.histplot module
      • histplot()
    • scanpy_plus.pl.pca_correlation module
      • pca_correlation()
    • scanpy_plus.pl.perma_plot module
      • perma_plot()
    • scanpy_plus.pl.plotly_umap module
      • plotly_umap()
    • scanpy_plus.pl.ridgeplot module
      • ridgeplot()
    • scanpy_plus.pl.splitplot module
      • splitplot()
    • scanpy_plus.pl.splitscatter module
      • splitscatter()
    • scanpy_plus.pl.umap3dPlotting module
      • umap3dPlotting()
    • scanpy_plus.pl.umap_allobs module
      • umap_allobs()
    • scanpy_plus.pl.umap_grid module
      • umap_grid()
    • scanpy_plus.pl.umap_markers module
      • umap_markers()
• scanpy_plus.pp package
  • Submodules
    • scanpy_plus.pp.assign_sex module
      • assign_sex()
    • scanpy_plus.pp.cellbender module
      • cellbender()
    • scanpy_plus.pp.cellcycle_corr module
      • cellcycle_corr()
• scanpy_plus.tl package
  • Submodules
    • scanpy_plus.tl.gsea module
      • Gsea
        • Gsea.get_results()
        • Gsea.getdb()
        • Gsea.run_gsea()
    • scanpy_plus.tl.map_to_dahlin module
      • Project_landscape
        • Project_landscape.calc_pca_dist()
        • Project_landscape.cluster_assignment()
        • Project_landscape.labelling()
        • Project_landscape.log()
        • Project_landscape.normalise()
        • Project_landscape.pca_project_myadata()
        • Project_landscape.plot_on_ref()
        • Project_landscape.run_pca_ref()
        • Project_landscape.scale_separately()
        • Project_landscape.scale_together()
      • map_to_dahlin()
    • scanpy_plus.tl.rankobs module
      • rankobs()
    • scanpy_plus.tl.run_scvi module
      • clean_genes()
      • download_cc()
      • run_scvi()
      • scvi_plot()
    • scanpy_plus.tl.tryumap module
      • tryumap()

Submodules

• scanpy_plus.describe module
  • describe()
• scanpy_plus.get_from_raw module
  • get_from_raw()
• scanpy_plus.globimport module
• scanpy_plus.is_outlier module
  • is_outlier()
• scanpy_plus.magics module
  • adata_count
    • adata_count.cmagic()
    • adata_count.lcmagic()
    • adata_count.lmagic()
  • load_ipython_extension()