Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx skills add woliveiras/geremmyas --skill scientific-papergit clone --depth 1 https://github.com/woliveiras/geremmyasWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/skills/woliveiras/geremmyas/scientific-paper)<a href="https://agentmods.dev/skills/woliveiras/geremmyas/scientific-paper"><img src="https://agentmods.dev/badge/skills/woliveiras/geremmyas/scientific-paper/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/woliveiras/geremmyas/scientific-paper"><img src="https://agentmods.dev/badge/skills/woliveiras/geremmyas/scientific-paper.svg" alt="Reviewed on agentmods" width="80" height="20"></a>What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00046 | $0.02013 |
| Opus 5 | $0.00023 | $0.01007 |
| Sonnet 5 | $0.00009 | $0.00403 |
| Haiku 4.5 | $0.00005 | $0.00201 |
Grade A, and why
scientific-paper scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 11d ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
How it starts
The opening of the file, as written. The whole thing — 144 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Scientific Paper Skill
Complete workflow for empirical SE research: paper creation, deep review, SLR, methodology critique, peer-review simulation, and LaTeX conventions.
Modes of Operation
| Mode | Trigger phrases | What it does |
|---|---|---|
create |
"create paper", "new paper", "paper template", "criar artigo" | Scaffolds paper structure + LaTeX template |
review |
"review paper", "revisar paper", "find errors" | Full structured review: methodology, writing, validity |
critique |
"critique", "metodologia", "methodological errors", "erros metodológicos" | Deep methodology critique using error catalog |
peer-review |
"peer review", "referee report", "simulate reviewer", "parecerista" | Generates structured referee report (Summary / Strengths / Weaknesses / Questions / Recommendation) |
slr |
"systematic review", "SLR", "revisão sistemática", "literature review" | Guides SLR protocol from scratch |
methodology-check |
"check methodology", "rigor", "validity", "research design" | Runs methodology checklist for study type |
data-presentation |
"figures", "tables", "charts", "data viz", "plots", "benchmark results" | Reviews data presentation choices |
bib-validate |
"validate bibliography", "check citations", "missing citations", "bib" | Runs validate-bib.py to catch orphaned \cite{} and missing .bib entries |
Step-by-Step Procedures
Mode: review - Full Paper Review
- Ask for the paper file or content (paper.tex or text paste).
- Load error catalog to identify issues by category.
- Load methodology checklist and run the appropriate checklist for the paper's study type.
- Load threats-to-validity to audit the validity section.
- Load paper-structure to verify completeness of all sections.
- Produce structured output:
- Critical errors (must fix before submission)
- Major concerns (likely desk-reject or major revision)
- Minor issues (polish, clarity, consistency)
- Positive observations (what is done well - important for balance)
- For each issue: location (section/paragraph) → problem → recommended fix.
What ships with it
11 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
- assets/paper-template.tex 12 KB
- assets/slr-protocol-template.md 7.8 KB
- references/data-presentation.md 8.4 KB
- references/error-catalog.md 10 KB
- references/latex-conventions.md 5.9 KB
- references/methodology-checklist.md 8.7 KB
- references/paper-structure.md 7.8 KB
- references/systematic-review-protocol.md 8.8 KB
- references/threats-to-validity.md 8.3 KB
- references/venues.md 7.0 KB
- scripts/validate-bib.py 10.0 KB runs code
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 11d ago First seen · 144 lines · 46 tokens per session scan A fffd7942bf77
scientific-paper is a skill published in the GitHub repository woliveiras/geremmyas (10 stars, last pushed 1mo ago), licensed MIT. It adds 46 tokens to every session and 2,013 once invoked, about $0.0002 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-31.
Other skills, from other repositories
instrument-data-to-allotrope
Convert laboratory instrument output files (PDF, CSV, Excel, TXT) to Allotrope Simple Model (ASM) JSON format or flattened 2D CSV. Use this skill when scientists need to standardize instrument data for LIMS systems, data lakes, or downstream analysis. Supports auto-detection of instrument types. Outputs include full…
exploratory-data-analysis
Perform bounded, local exploratory analysis of explicitly supported scientific files. Use for redacted CSV/TSV/JSON profiles; optional NumPy, HDF5, FASTA/FASTQ, and basic image metadata inspection; missingness/leakage audits; outlier and transformation sensitivity; and rigorous EDA report scaffolds. Other domain…
matlab
Build, review, migrate, and safely plan MATLAB or GNU Octave numerical workflows, including arrays, tabular/time data, tests, projects, graphics, MAT files, and explicit Python interoperability.
phylogenetics
Build and analyze phylogenetic trees using MAFFT (multiple alignment), IQ-TREE 2 (maximum likelihood), and FastTree (fast NJ/ML). Visualize with ETE3 or FigTree. For evolutionary analysis, microbial genomics, viral phylodynamics, protein family analysis, and molecular clock studies.
research-engineer
An uncompromising Academic Research Engineer. Operates with absolute scientific rigor, objective criticism, and zero flair. Focuses on theoretical correctness, formal verification, and optimal implementation across any required technology.
mapping-to-snomed
Maps clinical concept spans extracted by OpenMed to SNOMED CT concepts through a USER-SUPPLIED terminology server (the user's own Ontoserver, Snowstorm, or UMLS/UTS), never a bundled vocabulary. Use when the user wants to code findings, disorders, procedures, body structures, or substances to SNOMED CT, run an ECL…