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reformat-gene-family

Reformat gene family table in EXECUTIVE_SUMMARY.md

Metadata

Statusdone
Assignedagent-585
Agent identity3184716484e6f0ea08bb13539daf07686ee79d440505f1fdf2de0357707034c3
Created2026-04-02T23:50:48.201244770+00:00
Started2026-04-02T23:52:25.243207352+00:00
Completed2026-04-02T23:56:22.920819502+00:00
Tagsfix,component, eval-scheduled
Eval score0.62
└ blocking impact0.80
└ completeness0.48
└ coordination overhead0.85
└ correctness0.65
└ downstream usability0.70
└ efficiency0.78
└ intent fidelity0.70
└ style adherence0.85

Description

CRITICAL CONTEXT

PHR = Pseudohomologous Region.

Goal

Rewrite the gene family catalog table in EXECUTIVE_SUMMARY.md to be compact and readable.

Approach

  1. Read EXECUTIVE_SUMMARY.md — find the gene family catalog table
  2. Read the community legend from the build-community-legend task log
  3. Read gene_copy_summary.csv for accurate copy counts

Replace each row's long chromosome list with:

  • Copies: number
  • Arms: count + p/q indicator (e.g. '16 p-arms', '18 q-arms', '2 (X/Y)')
  • Communities: just the IDs (e.g. 'C3, C11, C12')

The table columns should be: | Gene | Type | Copies | Arms | Communities | Function | Disease |

Keep each cell SHORT. Function = max 4-5 words. Disease = gene symbol or 'None known'.

  1. Insert the community legend (from build-community-legend task) right before the table.
  2. Write the updated EXECUTIVE_SUMMARY.md

Validation

  • No table row exceeds 120 characters
  • Community legend is present above the table
  • All 23 protein-coding gene families are in the table
  • Copy counts match gene_copy_summary.csv
  • PHR = Pseudohomologous Region throughout

Depends on

Required by

Log