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Enrich

Enrich is an informational widget for gene set enrichment analysis: given a list of genes (e.g. the top marker genes for a cluster), it looks up enriched terms against public gene-set libraries via the Enrichr API.

What it shows

  • A library selector for choosing which Enrichr gene-set library to query (e.g. CellMarker_2024).
  • A bar chart of the top enriched terms for the current gene list, ranked by score. Clicking a bar highlights the genes it's associated with.
  • A gene list panel — clicking a gene shows detail about that gene and highlights it across the term bar chart.
  • A link to view the full result set on Enrichr.

Usage

import celldega as dega

enrich = dega.viz.Enrich(width=650, height=650)
enrich.gene_list = ["BRCA1", "TP53", "EGFR"]
enrich

Enrich is commonly driven by a gene list derived from a Clustergram or Landscape selection (e.g. marker genes for a clicked cluster). Use dega.viz.clustergram_enrich(cgm) or dega.viz.spatial_clustergram(spatial, cgm, enrich=True) to create that link. The core Clustergram-to-Enrich gene-list link runs in the browser, so it also works in a statically embedded documentation notebook without a live Python kernel. Clustergram keeps this enrichment set separate from its focused gene: clicking one row can focus that gene across the linked views without replacing the multi-gene enrichment query. Dendrogram/crop selections and a column's top-marker selection update the enrichment set. For the full list of constructor arguments, see the Viz Module API reference.

Note

Screenshots and an example video are coming soon.