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Supported workflows #31

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dosumis opened this issue Aug 8, 2023 · 1 comment

Contributor

dosumis commented Aug 8, 2023 •

edited

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Wrapper object

User initialises with a CxG anndata file.
this wraps analyzer and enricher objects

Analyzer object

User initialises chooses free text cell type fields --> analysis (Support basic metaschema for flagging cell-type fields #14)

Enricher object

Runs enrichment method. => enrichment tables + graphs (both stored on object). graphs are rdf, transitively reduced. Stored in memory.

Graph generation (on wrapper object)

User specifies priority list of obs to use for label --> generates RDF graph of co-annotation (transitively reduced) (Add label settting function for co-annotation graph generation #30)
Generate enriched graph (combining with co-annotation graph)
Outputs:
- Visualize graphs with networkX
- Save as rdf
- Return networkX object.

Tasks:

Add wrapper object that initialises and contains enricher and analyzer objects #32

Collaborator

ubyndr commented Sep 4, 2023

This has been resolved with #32

ubyndr closed this as completed

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