survey-hi-c — workgraph

Metadata

Status	done
Assigned	`agent-636`
Agent identity	`3577bc75d6ed4f1947509aa5c086c91ce7c997c7806dab6bf6affac647452647`
Created	2026-05-04T22:44:42.060054172+00:00
Started	2026-05-04T22:48:13.074021028+00:00
Completed	2026-05-04T23:16:05.003357538+00:00
Tags	`paper-prep,survey`, `eval-scheduled`
Tokens	98144 in / 9 out
Eval score	0.79
└ blocking impact	0.70
└ completeness	0.88
└ coordination overhead	0.65
└ correctness	0.85
└ downstream usability	0.80
└ efficiency	0.70
└ intent fidelity	0.74
└ style adherence	0.75

Description

INPUT: end-to-end-report/report/05_hic_validation.md (read fully). CONTEXT: Nature manuscript + 15-min talk on subtelomeric sequence sharing across HPRCv2; this task surveys ONE section. Hi-C validation includes: B/W ratio, Mantel test, ARI, multi-resolution (5kb–100kb), no-acrocentric control, O/E normalization, RPE-1. TASK: Extract: (1) Key findings with metrics (test statistics, p-values, ARI scores, B/W ratios); (2) Existing figures referenced (paths); (3) Existing CSVs/data files (paths); (4) Methods used; (5) Gaps; (6) Suggested figures main+SI with captions (produced-vs-todo); (7) Talk slide takeaways. OUTPUT: paper_prep/surveys/SURVEY_05_hic_validation.md (7 numbered sections). ACCEPTANCE: File exists, all 7 sections present, concrete paths cited.

INPUT: end-to-end-report/report/05_hic_validation.md (read fully).
CONTEXT: Nature manuscript + 15-min talk on subtelomeric sequence sharing across HPRCv2; this task surveys ONE section. Hi-C validation includes: B/W ratio, Mantel test, ARI, multi-resolution (5kb–100kb), no-acrocentric control, O/E normalization, RPE-1.
TASK: Extract: (1) Key findings with metrics (test statistics, p-values, ARI scores, B/W ratios); (2) Existing figures referenced (paths); (3) Existing CSVs/data files (paths); (4) Methods used; (5) Gaps; (6) Suggested figures main+SI with captions (produced-vs-todo); (7) Talk slide takeaways.
OUTPUT: paper_prep/surveys/SURVEY_05_hic_validation.md (7 numbered sections).
ACCEPTANCE: File exists, all 7 sections present, concrete paths cited.

Depends on

done .assign-survey-hi-c

Required by

Log

2026-05-04T22:44:42.028201654+00:00 Task paused
2026-05-04T22:47:35.539753824+00:00 Task resumed
2026-05-04T22:48:02.348248799+00:00 Lightweight assignment: agent=random-agent-3577bc75 (3577bc75), exec_mode=full, context_scope=task, reason=Documenter role with verify-against-source tradeoff aligns with survey task requiring concrete path extraction and source verification.
2026-05-04T22:48:13.074024525+00:00 Spawned by coordinator --executor claude --model opus
2026-05-04T22:48:21.654437875+00:00 Starting survey of Hi-C/Pore-C 3D validation section
2026-05-04T22:52:43.616120839+00:00 Wrote paper_prep/surveys/SURVEY_05_hic_validation.md with all 7 numbered sections (key findings, figures, CSVs, methods, gaps, suggested figures, talk takeaways). Cited concrete paths in /moosefs/guarracino/HPRCv2/PHR_III/analysis/human/.
2026-05-04T22:53:03.864752782+00:00 Committed: 949db4c — pushed to remote
2026-05-04T22:53:14.023515561+00:00 Validated: file exists at paper_prep/surveys/SURVEY_05_hic_validation.md, all 7 numbered sections (## 1 through ## 7) present, concrete paths cited under /moosefs/guarracino/HPRCv2/PHR_III/analysis/human/ and /moosefs/guarracino/HPRCv2/scripts/. Acceptance criteria met.
2026-05-04T23:16:05.003360373+00:00 Task pending eval (agent reported done; awaiting `.evaluate-*` to score)
2026-05-04T23:20:01.182310658+00:00 PendingEval → Done (evaluator passed; downstream unblocks)