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Alzion g 717 - #8

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dosumis wants to merge 30 commits into

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Alzion_G_717

Closed

Alzion g 717#8
dosumis wants to merge 30 commits into
mainfrom
Alzion_G_717

Commits on Jun 29, 2026
- Add soulcap-cl-pro: document CL→PR marker relationships from Ubergraph
  
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- cl_pro: drop unasserted PR-hierarchy generalisations from the report
  
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- cl_pro: drop root protein, True/False booleans, scope-aware CD detection
  
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- cl_pro: prune property-hierarchy redundancy (keep most specific relation)
  
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Commits on Jul 4, 2026
- feat: add soulcap-lookup, soulcap-tokens, type checking, and CI improvements
  
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Commits on Jul 6, 2026
- feat: add soulcap-match CLI for scoring CL candidates against marker profiles
  
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- feat: add soulcap-hgnc — HGNC gene symbol mapping for CL PR markers
  
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Commits on Jul 14, 2026
- docs: track CL term corrections in reports and ROADMAP
  
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Commits on Jul 15, 2026
- feat: Milestone 1 — marker_protein_gene.csv mapping table
  
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- feat: Milestone 2 — NK cell marker literature report
  
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Commits on Jul 16, 2026
- feat: Milestone 2 — ILC, DC, iNKT, and T cell marker literature reports
  
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Commits on Jul 19, 2026
- feat: Milestone 2 — B cell and gdT+MAIT marker literature reports
  
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- docs: record upstream CL issues filed for #13 NKT cell naming
  
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- docs: record upstream CL issue filed for #12 monocyte corrections
  
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Commits on Jul 21, 2026
- fix: strip UniProt isoform suffixes before Monarch lookup in soulcap-hgnc
  
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Commits on Jul 22, 2026
- Add batch/lexical CL matching, OR-group scoring, and Milestone 4 candidate mappings (issue #6)
  
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Commits on Jul 24, 2026
- Add OAK matching, SSSOM export, gap tracking, and ROBOT ontology QC CI
  
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- Add Monocyte family, Neutrophil, Eosinophil, and B cell candidate mappings
  
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- Add T cell tree candidate mappings (core lineage, CD56+ family, memory/naive tree)
  
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Commits on Jul 29, 2026
Commits on Jul 30, 2026
- feat: scope CL PRO markers needing species-specificity literature support (issue #11)
  
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Commits on Aug 4, 2026
- feat: add keyless Europe PMC fallback and compile PRO marker species-support TSV (issue #11)
  
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- docs: add pro-marker-species-support skill (issue #11, Step 7)
  
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Commits on Sep 11, 2026
- feat: registry-backed mapping engine, audit dashboard, and matcher evaluation harness
  
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Commits on Sep 18, 2026
- feat: fingerprinted marker-resolution policies, regression triage, and evidence-reviewed follow-up
  
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- docs: add Fall 2026 sprint-level backlog
  
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- fix: don't hard-fail benchmark reserve test on missing gitignored data/ cache
  
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- chore: refresh marker_validation.md from latest sheet sync
  
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Commits

Commits on Jun 29, 2026

Commits on Jul 4, 2026

Commits on Jul 6, 2026

Commits on Jul 14, 2026

Commits on Jul 15, 2026

Commits on Jul 16, 2026

Commits on Jul 19, 2026

Commits on Jul 21, 2026

Commits on Jul 22, 2026

Commits on Jul 24, 2026

Commits on Jul 29, 2026

Commits on Jul 30, 2026

Commits on Aug 4, 2026

Commits on Sep 11, 2026

Commits on Sep 18, 2026