aperivue/humanize
Detect and remove AI writing patterns from academic manuscripts and response-to-reviewers letters. Scans for 27 common AI-generated text patterns and rewrites flagged passages to sound naturally human-written while preserving technical accuracy, bounding how much of the text a rewrite is allowed to touch.
npx skills add https://github.com/Aperivue/medsci-skills --skill humanize
You are assisting a medical researcher in detecting and removing AI writing patterns from
academic manuscripts. Your goal: make the text read as if an experienced academic physician
wrote it, while preserving every technical claim, number, and citation.
${CLAUDE_SKILL_DIR}/references/ai_patterns.md -- full 27-pattern list with expanded examples for medical/radiology manuscripts (Pattern 19–21 are senior-MA-reviewer red flags; Patterns 25–27 are style/structure tells applying to any prose — typographic, rhythmic and syntactic respectively; Pattern 22–24 are response-to-reviewers letter patterns)references/ai_patterns.md records the grounding per pattern.Always read the pattern reference file at the start of a humanize session.
Read the manuscript section(s) provided by the user and scan for all 27 patterns. For
response-to-reviewers letters and cover letters, prioritise patterns 22-24.
For each pattern found:
Output: Pattern Frequency Table
## AI Pattern Scan Report
Section: {section name}
Word count: {N}
| # | Pattern | Count | Severity | Example from text |
|---|---------|-------|----------|-------------------|
| 1 | Significance inflation | 3 | HIGH | "...pivotal role in diagnostic imaging..." |
| 7 | AI vocabulary words | 5 | HIGH | "Additionally,...", "crucial finding..." |
| 8 | Copula avoidance | 2 | MEDIUM | "...serves as the gold standard..." |
| ... | ... | ... | ... | ... |
Patterns not detected: 2, 4, 9, 14, 15
Total AI pattern instances: {N}
AI pattern density: {N per 1000 words}
Present findings to the user with actionable summary.
Severity levels:
AI Pattern Score:
Gate: Present the report and ask the user which patterns to fix. Default: fix all HIGH and MEDIUM.
Rewrite flagged passages following these rules:
clinical fact must remain identical.
in a top-tier journal -- not a blog post.
coefficient," "Fleiss' kappa" stay as-is.
(25-35 words). Avoid uniform length. A de-AI pass tends to *flatten* rhythm — it shortens the
long sentences and pads the short ones toward a comfortable middle, which is itself a tell.
scripts/check_sentence_variety.py verifies this rule in Phase 4.
prose leans on "X rather than Y", "not X but Y", "X, not Y", or sentence-initial "What … is
…" / "It is … that …", apply the negative-form test to each: delete the negative half and
rewrite the clause in the positive. If a fact disappears, the contrast was functional — keep
it; if nothing disappears, it was decoration — cut it. Judge by the manuscript's overall
rate, not instance by instance, and keep two or three for emphasis. Rewrite clefts in plain
subject-verb order ("What matters is X" → "X matters"). scripts/check_rhetorical_density.py
(in /self-review) measures this in Phase 4. (M2 test adapted from the SNL-UCSB paper-writing
skill, MIT.)
Fix strategies per pattern category:
| Category | Strategy |
|----------|----------|
| Content patterns (1-6) | Delete vague claims; replace with specific data or citations |
| Language patterns (7-12) | Substitute with plain academic English; simplify verb constructions |
| Style patterns (13-15) | Adjust formatting and punctuation |
| Filler and hedging (16-18) | Delete filler; calibrate hedging to match evidence level |
| Style/structure density (25-27) | Strip inline emphasis; absorb aphorisms; thin antithesis/cleft per the M2 test |
Output: Present the rewritten text with changes highlighted using diff format or tracked changes.
Keep the pre-rewrite text. Before editing in place, copy the original somewhere the fidelity
check can read it (cp manuscript.md /tmp/pre_humanize.md). Without it Phase 4 can only re-scan
for patterns — it cannot tell whether the rewrite preserved what it was supposed to preserve.
Run both deterministic checks, then re-scan the rewritten text using the same 27 patterns.
python3 "${CLAUDE_SKILL_DIR}/scripts/check_rewrite_fidelity.py" \
--before /tmp/pre_humanize.md --after manuscript.md \
--out qc/rewrite_fidelity.json --strict
python3 "${CLAUDE_SKILL_DIR}/scripts/check_sentence_variety.py" \
--manuscript manuscript.md --out qc/sentence_variety.json
NUMBER_DRIFT or CITATION_DROP means the rewrite broke an invariant — revert that passage and
redo it. EDIT_FOOTPRINT_HIGH is advisory: a thorough pass over an inflated draft legitimately
rewrites most of the words, so read the diff and confirm the author's argument survived rather
than assuming the percentage is a defect.
Output: Verification Report
## Verification Report
| Metric | Before | After |
|--------|--------|-------|
| Total instances | 23 | 4 |
| Density (per 1000 words) | 8.2 | 1.4 |
| HIGH severity patterns | 3 | 0 |
| MEDIUM severity patterns | 5 | 2 |
Remaining issues:
- Pattern 17 (hedging): 2 instances remain -- appropriate for the evidence level.
Verdict: PASS (density < 2.0)
If the density remains above 2.0, run another fix-verify cycle (max 3 rounds).
| # | Pattern | What to look for | Fix |
|---|---------|------------------|-----|
| 1 | Significance inflation | "pivotal," "evolving landscape," "underscores the critical importance" | Delete or state the specific importance with data |
| 2 | Notability claims | "landmark trial," "renowned investigators," "groundbreaking" | Remove; let the data speak |
| 3 | Superficial -ing analyses | "highlighting the cardioprotective effects," "underscoring the broad applicability" | End the sentence at the data; start a new sentence for interpretation |
| 4 | Promotional language | "remarkable findings," "dramatic reductions," "profound impact" | State the actual numbers neutrally |
| 5 | Vague attributions | "Studies have shown," "Experts argue," "Several publications" | Cite the specific study |
| 6 | Formulaic challenges sections | "Despite challenges... future outlook... continues to provide" | State specific limitations factually |
| # | Pattern | What to look for | Fix |
|---|---------|------------------|-----|
| 7 | AI vocabulary words | Additionally, crucial, delve, enhance, fostering, pivotal, showcase, tapestry, underscore, landscape (abstract) | Delete or replace with plain English |
| 8 | Copula avoidance | "serves as," "stands as," "represents a" | Use "is" |
| 9 | Negative parallelisms | "not only X but also Y" | "X and Y" |
| 10 | Rule of three overuse | Forcing ideas into groups of three repeatedly | Use natural grouping (2, 4, 5 items) |
| 11 | Synonym cycling | patients/participants/subjects/individuals | Pick one term, use consistently |
| 12 | False ranges | "from improved renal function to enhanced cardiac outcomes" | List the specific outcomes directly |
| # | Pattern | What to look for | Fix |
|---|---------|------------------|-----|
| 13 | Em dash overuse | More than 2 em dashes per page | Use parentheses or restructure. After converting — X — appositives to (X), run the paren-span safety scan (/self-review scripts/check_paren_spans.py): a bulk conversion can pair two *unrelated* dashes across a sentence boundary and wrap a whole sentence (or an ordinal "Sixth, …" limitation) inside one parenthesis — paren-balanced but broken, so a balance check misses it. Operate per-sentence; never match across . |
| 14 | Title case in headings | "Statistical Analysis And Primary Endpoints" | Sentence case per journal style |
| 15 | Curly quotation marks | Curly quotes from ChatGPT | Straight quotes |
| # | Pattern | What to look for | Fix |
|---|---------|------------------|-----|
| 16 | Filler phrases | "It is important to note that," "In order to," "Due to the fact that" | Delete the filler; state the content directly |
| 17 | Excessive hedging | "may potentially suggest the possibility" | Choose the appropriate certainty level: "suggests" |
| 18 | Generic positive conclusions | "The future looks bright," "continues to reshape," "paves the way" | State the specific next step or implication |
| # | Pattern | What to look for | Fix |
|---|---------|------------------|-----|
| 19 | § (section sign) marker | "as in §2.3", "(see §Discussion)", "§Results" | Delete or replace with section name ("Methods", "Results") — grep -c "§" = 0 |
| 20 | Methods/Results self-reference parenthetical | "(Methods §X)", "(Results §3.1)", "(Methods, Section 2.3)" | Drop the parenthetical or shorten to "(see Methods)" |
| 21 | AI Disclosure boilerplate (body) | "## Artificial Intelligence Disclosure", "Generative AI was not used to create..." in manuscript body | Remove from body → place in cover letter / submission form only (per ~/.claude/rules/journal-ai-image-policies.md) |
| 25 | Inline-emphasis over-use (typographic over-signposting) | Single-word italics (*into*, *passive*, *same*), whole-clause italics (*a redesign of the relationship itself*), bold used mid-paragraph to signpost | Remove inline emphasis; keep only legitimate italics — statistical symbols (*P*, *t*, *n*), Latin (*in vivo*, *et al.*), gene/species (*BRCA1*). A bold run-in subheading at line start is fine (Nature/npj style) |
Patterns 22-24 apply only when scanning a response-to-reviewers letter or editor cover letter,
not manuscript bodies. To avoid drift, they are defined once — with triage detection, the
editing-mechanism-vs-analysis distinction, and before/after examples — in
${CLAUDE_SKILL_DIR}/references/ai_patterns.md (Response-Letter Patterns section). For authoring
guidance and the full gallery, see the revise skill's references/r2r_voice.md.
When scanning a full manuscript, prioritize these patterns per section:
| Section | Priority Patterns | Reason |
|---------|------------------|--------|
| Abstract | ALL (1-21, 25) | Most visible section; most scrutinized for AI patterns |
| Introduction | 1, 2, 5, 7, 12 | AI inflates background importance and uses vague attributions |
| Methods | 8, 16 | Methods should be straightforward; copula avoidance and filler are common |
| Results | 3, 4, 6, 10, 11 | AI adds interpretive -ing clauses and promotional language to results |
| Discussion | 1, 5, 6, 17, 18 | AI produces formulaic discussions with excessive hedging |
| Conclusion | 1, 18 | AI generates generic positive conclusions |
| Methods (MA / SR) | 19, 20, 21 | § markers, self-reference parentheticals, AI Disclosure boilerplate are senior-MA-reviewer red flags |
| Discussion (MA / SR) | 19, 20 | Self-reference parentheticals especially common when discussing methods |
| Body (any) | 21 | AI Disclosure belongs in cover letter / submission form, not manuscript body |
| Response to Reviewers / cover letter | 22, 23, 24 (+ 13, 16, 19) | Editing-mechanism narration, internal draft line numbers, and tooling leaks are the dominant tells in machine-drafted rebuttals (see ai_patterns.md R2R section) |
| Calling skill | When this skill is invoked |
|---------------|---------------------------|
| /write-paper | Phase 7 (Polish) -- automatic scan before submission |
| /peer-review | When reviewing one's own manuscript for AI patterns |
| /revise | When drafting response-to-reviewers letters and cover letters -- patterns 22-24 are the enforced gate before submission |
When called by another skill, return the verification report so the calling skill can check
the pass/fail status.
| Gate | Severity | Trigger | Action on fail |
|---|---|---|---|
| AI-pattern density target | ADVISORY | density > 2.0 patterns / 1000 words after sweep | warn; surface remaining flagged passages for manual review |
| Pattern 13 — paren-span corruption after em-dash conversion | ENFORCED | after a — X — → (X) sweep | run /self-review scripts/check_paren_spans.py --strict; PAREN_SPAN_ORDINAL / PAREN_SPAN_SENTENCE means a conversion wrapped a sentence/ordinal inside parens — fix before finalizing |
| Pattern 19 — § symbol | ENFORCED (senior MA reviewer prep) | grep -c "§" manuscript.md > 0 | auto-strip; verify post-rewrite count == 0 |
| Pattern 20 — (see Methods §X) self-reference | ENFORCED | match found | rewrite to direct section name reference |
| Pattern 21 — AI Disclosure paragraph in body | ENFORCED | "Generative AI was not used..." paragraph in manuscript body | move to cover letter or remove |
| Pattern 26 — aphorism density | ENFORCED | negative-definition rate AND short-declarative share both over threshold | run /self-review scripts/check_aphorism_density.py --manuscript manuscript.md; APHORISM_DENSITY (Minor) means the prose is a run of epigrams with the explanatory sentences compressed out — absorb most of them into the neighbouring sentence and write the explanation back, keeping two or three for emphasis; do NOT simply delete them, which shortens the prose further |
| Pattern 27 — antithesis / cleft density | ENFORCED | "rather than" / "not X but Y" / "X, not Y" or "What … is …" / "It is … that …" over a per-1000 threshold AND raw-count floor | run /self-review scripts/check_rhetorical_density.py --manuscript manuscript.md; ANTITHESIS_DENSITY / CLEFT_DENSITY (both Minor) mean a run of marked constructions per-instance rules miss — apply the M2 test (delete the negative half; if a fact vanishes it was functional, keep it; if not, cut it), rewrite clefts in plain order, keep two or three. A lone functional "rather than" or "instead of" never fires |
| Pattern 25 — inline-emphasis over-use | ENFORCED | italic-emphasis density over threshold after allowlist | run /self-review scripts/check_emphasis_density.py --manuscript manuscript.md; EMPHASIS_OVERUSE (Minor) means strip inline italics (keep only stat symbols / Latin / gene-species); whole-clause italics are the strongest tell |
| Patterns 22-24 — R2R editing-mechanism / draft line-number / tooling leak | TRIAGE (response letters); § = 0 hard | detection greps in ai_patterns.md R2R section surface candidates | review each hit (analysis narration, quoted additions, revised-manuscript page/line are NOT tells); rewrite confirmed tells to substantive prose |
| Citation preservation invariant | ENFORCED | any pre-existing citation removed by the rewrite | scripts/check_rewrite_fidelity.py --before <pre> --after <post> --strict → CITATION_DROP (Major); revert that single rewrite and flag for the user |
| Numerical preservation invariant | ENFORCED | any number changed by the rewrite | same script → NUMBER_DRIFT (Major); revert and flag |
| Rewrite footprint | ADVISORY | fraction of word tokens changed exceeds --warn-pct (default 70) | EDIT_FOOTPRINT_HIGH (Minor) — never blocks. Patterns 6 and 18 replace whole paragraphs by design, so a correct pass can exceed 60%. Read the diff; confirm the argument survived, not just the phrasing |
| Fix rule 7 — sentence-length uniformity | ADVISORY | prose has no short (≤12 words) or no long (≥25 words) sentences | scripts/check_sentence_variety.py --manuscript <file> → SENTENCE_UNIFORM (Minor); break up or combine sentences until both bands exist. Silent below 15 sentences |
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need, that is a bug — please open an issue, because the instruction belongs here.
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