.claude-plugin/marketplace.json
.claude-plugin/plugin.json
.claude/agents/fact-checker.md
.claude/agents/integrity-reviewer.md
.claude/agents/outline-planner.md
.claude/agents/peer-reviewer.md
.claude/agents/vault-maintainer.md
.claude/hooks/ai-tell.sh
.claude/hooks/block-dangerous-commands.sh
.claude/hooks/block-fabrication.sh
.claude/hooks/branch-protect.sh
.claude/hooks/citation-gate.sh
.claude/hooks/compile-gate.sh
.claude/hooks/figure-orphan.sh
.claude/hooks/journal-fold.sh
.claude/hooks/lib/json-parse.sh
.claude/hooks/lib/state-counter.sh
.claude/hooks/project/ai-tell-allow.txt.example
.claude/hooks/prompt-router.sh
.claude/hooks/protect-sources.sh
.claude/hooks/session-end.sh
.claude/hooks/session-start.sh
.claude/hooks/stop-gate.sh
.claude/hooks/unicode-scan.sh
.claude/hooks/word-budget.sh
.claude/settings.json
.claude/skills/abstract/SKILL.md
.claude/skills/citation-audit/SKILL.md
.claude/skills/claim-check/SKILL.md
.claude/skills/cover-letter/SKILL.md
.claude/skills/gap-finder/SKILL.md
.claude/skills/journal-fit/SKILL.md
.claude/skills/lit-briefing/SKILL.md
.claude/skills/lit-ingest/SKILL.md
.claude/skills/lit-lint/SKILL.md
.claude/skills/literature-review/SKILL.md
.claude/skills/manuscript-cycle/SKILL.md
.claude/skills/methods-review/SKILL.md
.claude/skills/note/SKILL.md
.claude/skills/outline/SKILL.md
.claude/skills/peer-review/SKILL.md
.claude/skills/plain-language-summary/SKILL.md
.claude/skills/reference-format/SKILL.md
.claude/skills/response-to-reviewers/SKILL.md
.claude/skills/retro/SKILL.md
.claude/skills/review-resurface/SKILL.md
.claude/skills/scorecard/SKILL.md
.claude/skills/stats-check/SKILL.md
.claude/skills/submission-pipeline/SKILL.md
.github/workflows/validate.yml
.gitignore
AGENTS.md
ARTIFACTS.md
CHANGELOG.md
CLAUDE.md
CLAUDE.project.md
LICENSE
MANUSCRIPT_MAP.md
README.md
STYLE.md
VAULT.md
VERSION
agent_docs/academic-style.md
agent_docs/citation-discipline.md
agent_docs/field/ai-ml.md
agent_docs/field/life-sciences.md
agent_docs/field/medicine.md
agent_docs/field/social-sciences.md
agent_docs/peer-review.md
agent_docs/reproducibility.md
agent_docs/statistics.md
agent_docs/writing-workflow.md
artifacts/design-system.html
artifacts/index.html
assets/logo.png
bench/README.md
bench/scenarios/ai-tell.json
bench/scenarios/block-fabrication.json
bench/scenarios/citation-gate.json
bench/scenarios/e3-hooks.json
bench/scenarios/e8-memory.json
bench/scenarios/prompt-router.json
bench/scenarios/protect-sources.json
bench/scenarios/session-and-reused.json
bench/scenarios/stop-gate.json
bin/claude-research-kit.js
install.sh
package.json
scripts/convert.sh
scripts/doctor.sh
scripts/note.sh
scripts/review-resurface.sh
scripts/run-bench.sh
scripts/sync-manifest.sh
scripts/test-install.sh
tasks/decisions.md
tasks/reviews/_TEMPLATE.md
tasks/reviews/_index.md
tasks/todo.md
uninstall.sh
vault/_templates/concept.md
vault/_templates/entity.md
vault/_templates/source.md
vault/index.md
vault/log.md
