Skip to main content
Ctrl+K
cellfish - Home cellfish - Home
  • About cellfish
  • API
    • IO
      • cellfish.io.sanitize_for_h5_write
      • cellfish.io.write_h5_safe
    • Data
      • cellfish.data.require_obs
      • cellfish.data.require_obsm
      • cellfish.data.require_var
      • cellfish.data.require_layer
      • cellfish.data.filter_features
      • cellfish.data.get_markers
      • cellfish.data.map_label_to_cluster
      • cellfish.data.replace_prefix
      • cellfish.data.replace_suffix
      • cellfish.data.join_labels
      • cellfish.data.paired_rna_atac_labels
    • Plotting
      • cellfish.plot.setup_style
      • cellfish.plot.savefig
      • cellfish.plot.font_signature
      • cellfish.plot.validate_and_load_fonts
      • cellfish.plot.export_mplstyle
      • cellfish.plot.get_palette
      • cellfish.plot.create_palette_from_types
      • cellfish.plot.order_labels
      • cellfish.plot.reorder_and_set_palettes
      • cellfish.plot.show_color
      • cellfish.plot.show_palette
      • cellfish.plot.list_available_palettes
      • cellfish.plot.embedding
      • cellfish.plot.embedding_numbered
      • cellfish.plot.umap
      • cellfish.plot.tsne
      • cellfish.plot.pca
      • cellfish.plot.mde
      • cellfish.plot.embedding_celltype
      • cellfish.plot.embedding_adjust
      • cellfish.plot.embedding_density
      • cellfish.plot.ConvexHull
      • cellfish.plot.add_arrow
      • cellfish.plot.get_cluster_proportions
      • cellfish.plot.plot_cluster_proportions
      • cellfish.plot.cellproportion
      • cellfish.plot.cellstackarea
      • cellfish.plot.cell_alluvial
      • cellfish.plot.bardotplot
      • cellfish.plot.single_group_boxplot
      • cellfish.plot.plot_boxplots
      • cellfish.plot.violin_box
      • cellfish.plot.violin_old
      • cellfish.plot.dotplot_doublegroup
      • cellfish.plot.ridgeplot
      • cellfish.plot.add_contour
      • cellfish.plot.contour
      • cellfish.plot.plot_scatter
      • cellfish.plot.obs_scatter
      • cellfish.plot.plot1cell
      • cellfish.plot.plot1cell_atlas_meta_rings
      • cellfish.plot.simulate_atlas_anndata
      • cellfish.plot.dotplot
      • cellfish.plot.grid_dotplot
      • cellfish.plot.CircleLabels
      • cellfish.plot.rank_genes_groups_dotplot
    • Stats
      • cellfish.stats.is_outlier
    • Extensions
      • cellfish.ext.milo
      • cellfish.ext.liana
      • cellfish.ext.archr
      • cellfish.ext.drvi
      • cellfish.ext.scenicplus
      • cellfish.ext.chrombpnet
  • Gallery
  • Tutorials
    • Getting started
  • Changelog
  • Contributing
  • References
  • .md

Tutorials

Tutorials#

  • Getting started
    • Install
    • Load and check
    • Style and palettes
    • Embedding (UMAP or tissue)
    • Composition
    • Write AnnData
    • Next

previous

Gallery

next

Getting started

By Xufeng Chen