SCMCP

{ "description": "Input schema for the rank_genes_groups_dotplot plotting tool.", "properties": { "color_map": { "anyOf": [ { "type": "string" }, { "type": "null" } ], "default": null, "description": "Color map to use for continuous variables.", "title": "Color Map" }, "dendrogram": { "anyOf": [ { "type": "boolean" }, { "type": "string" } ], "default": false, "description": "If True or a valid dendrogram key, a dendrogram based on the hierarchical clustering between the groupby categories is added.", "title": "Dendrogram" }, "figsize": { "anyOf": [ { "maxItems": 2, "minItems": 2, "prefixItems": [ { "type": "number" }, { "type": "number" } ], "type": "array" }, { "type": "null" } ], "default": null, "description": "Figure size. Format is (width, height).", "title": "Figsize" }, "gene_symbols": { "anyOf": [ { "type": "string" }, { "type": "null" } ], "default": null, "description": "Column name in .var DataFrame that stores gene symbols.", "title": "Gene Symbols" }, "groupby": { "anyOf": [ { "type": "string" }, { "items": { "type": "string" }, "type": "array" } ], "description": "The key of the observation grouping to consider.", "title": "Groupby" }, "groups": { "anyOf": [ { "items": { "type": "string" }, "type": "array" }, { "type": "string" }, { "type": "null" } ], "default": null, "description": "The groups for which to show the gene ranking.", "title": "Groups" }, "key": { "anyOf": [ { "type": "string" }, { "type": "null" } ], "default": null, "description": "Key used to store the ranking results in adata.uns.", "title": "Key" }, "layer": { "anyOf": [ { "type": "string" }, { "type": "null" } ], "default": null, "description": "Name of the AnnData object layer that wants to be plotted.", "title": "Layer" }, "legend_fontoutline": { "anyOf": [ { "type": "integer" }, { "type": "null" } ], "default": null, "description": "Line width of the legend font outline in pt.", "title": "Legend Fontoutline" }, "legend_fontsize": { "anyOf": [ { "type": "integer" }, { "type": "number" }, { "type": "string" }, { "type": "null" } ], "default": null, "description": "Numeric size in pt or string describing the size.", "title": "Legend Fontsize" }, "legend_fontweight": { "anyOf": [ { "type": "integer" }, { "type": "string" } ], "default": "bold", "description": "Legend font weight. A numeric value in range 0-1000 or a string.", "title": "Legend Fontweight" }, "legend_loc": { "default": "right margin", "description": "Location of legend, either 'on data', 'right margin' or a valid keyword for the loc parameter.", "title": "Legend Loc", "type": "string" }, "log": { "default": false, "description": "Plot on logarithmic axis.", "title": "Log", "type": "boolean" }, "min_logfoldchange": { "anyOf": [ { "type": "number" }, { "type": "null" } ], "default": null, "description": "Value to filter genes in groups if their logfoldchange is less than the min_logfoldchange.", "title": "Min Logfoldchange" }, "n_genes": { "anyOf": [ { "type": "integer" }, { "type": "null" } ], "default": null, "description": "Number of genes to show. This can be a negative number to show down regulated genes. Ignored if var_names is passed.", "title": "N Genes" }, "palette": { "anyOf": [ { "type": "string" }, { "items": { "type": "string" }, "type": "array" }, { "additionalProperties": { "type": "string" }, "type": "object" }, { "type": "null" } ], "default": null, "description": "Colors to use for plotting categorical annotation groups.", "title": "Palette" }, "use_raw": { "anyOf": [ { "type": "boolean" }, { "type": "null" } ], "default": null, "description": "Use raw attribute of adata if present.", "title": "Use Raw" }, "values_to_plot": { "anyOf": [ { "enum": [ "scores", "logfoldchanges", "pvals", "pvals_adj", "log10_pvals", "log10_pvals_adj" ], "type": "string" }, { "type": "null" } ], "default": null, "description": "Instead of the mean gene value, plot the values computed by sc.rank_genes_groups.", "title": "Values To Plot" }, "var_group_labels": { "anyOf": [ { "items": { "type": "string" }, "type": "array" }, { "type": "null" } ], "default": null, "description": "Labels for each of the var_group_positions that want to be highlighted.", "title": "Var Group Labels" }, "var_group_positions": { "anyOf": [ { "items": { "maxItems": 2, "minItems": 2, "prefixItems": [ { "type": "integer" }, { "type": "integer" } ], "type": "array" }, "type": "array" }, { "type": "null" } ], "default": null, "description": "Use this parameter to highlight groups of var_names with brackets or color blocks between the given start and end positions.", "title": "Var Group Positions" }, "var_names": { "anyOf": [ { "items": { "type": "string" }, "type": "array" }, { "additionalProperties": { "items": { "type": "string" }, "type": "array" }, "type": "object" } ], "default": null, "description": "Genes to plot. Sometimes is useful to pass a specific list of var names (e.g. genes) to check their fold changes or p-values", "title": "Var Names" }, "vcenter": { "anyOf": [ { "type": "string" }, { "type": "number" }, { "items": { "anyOf": [ { "type": "string" }, { "type": "number" } ] }, "type": "array" }, { "type": "null" } ], "default": null, "description": "The value representing the center of the color scale.", "title": "Vcenter" }, "vmax": { "anyOf": [ { "type": "string" }, { "type": "number" }, { "items": { "anyOf": [ { "type": "string" }, { "type": "number" } ] }, "type": "array" }, { "type": "null" } ], "default": null, "description": "The value representing the upper limit of the color scale.", "title": "Vmax" }, "vmin": { "anyOf": [ { "type": "string" }, { "type": "number" }, { "items": { "anyOf": [ { "type": "string" }, { "type": "number" } ] }, "type": "array" }, { "type": "null" } ], "default": null, "description": "The value representing the lower limit of the color scale.", "title": "Vmin" } }, "required": [ "groupby" ], "title": "RankGenesGroupsDotplotModel", "type": "object" }