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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
System Settings
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