Scientific Agent Skills is a collection of reusable procedures that give AI agents capabilities for scientific research across areas such as biology, chemistry, medicine, and drug discovery. It is used by researchers and by people building AI scientist workflows with compatible coding agents. The catalogue contains many of the project's skills and supporting instructions.
Getting it into your agent
It runs from inside its repository, so the clone comes first — what it calls does not travel with the file alone.
git clone --depth 1 https://github.com/K-Dense-AI/scientific-agent-skillsnpx agentmods add skills/k-dense-ai/scientific-agent-skills/pptxWrote 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/k-dense-ai/scientific-agent-skills/pptx)<a href="https://agentmods.dev/skills/k-dense-ai/scientific-agent-skills/pptx"><img src="https://agentmods.dev/badge/skills/k-dense-ai/scientific-agent-skills/pptx/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/k-dense-ai/scientific-agent-skills/pptx"><img src="https://agentmods.dev/badge/skills/k-dense-ai/scientific-agent-skills/pptx.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- Socket pass
- Snyk pass
- NVIDIA SkillSpector warn
SkillSpector: 2 findings, up to high
These are SkillSpector’s own severities. On a checked sample its high-severity flags on skills were ~96% false positives — a documented command, a public API, a “never do X” rule — so we show them as a caution to read, not a verdict. Why →
- high Tool Misuse · line 66 Tool parameters are crafted to achieve unintended or unsafe behavior. Parameter abuse can bypass intended safety checks (e.g. shell=True, --force, dangerous glob patterns).Fix: Validate all tool parameters against an allowlist. Reject dangerous parameter values (shell=True, --force, -rf /) and use safe defaults.
- high Tool Misuse · line 66 Tool calls are chained to bypass individual safety checks or escalate capabilities beyond what any single tool call would allow.Fix: Limit tool chaining depth and validate the output of each tool before passing it to the next. Require explicit user approval for multi-step chains.
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 | $0.00171 | $0.05409 |
| Opus 5 | $0.00086 | $0.02704 |
| Sonnet 5 | $0.00034 | $0.01082 |
| Haiku 4.5 | $0.00017 | $0.00541 |
Grade A, and why
pptx 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 8d 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.
Copies of this mod
8 near-identical copies found in the catalogue:
How it starts
The opening of the file, as written. The whole thing — 247 lines — stays where its author put it; the contents beside it link to each section on GitHub.
PPTX creation, editing, and analysis
A .pptx is a ZIP archive of XML files. Choose your approach by task:
| Task | Approach |
|---|---|
| Create a new deck | Write a pptxgenjs script — see gotchas below |
| Edit an existing deck, or build from a template | unzip → edit ppt/slides/slideN.xml → zip |
| Read content | markitdown deck.pptx (one block per slide under <!-- Slide number: N --> markers); visual grid: python scripts/thumbnail.py deck.pptx |
Scripts
Paths are relative to this skill's directory. Everything else is plain Python, node, or shell.
| Script | What it does |
|---|---|
scripts/thumbnail.py deck.pptx [prefix] |
Labeled grid of every slide, for picking template layouts. .pptx only. Pass prefix — it defaults to thumbnails, which overwrites the grids of any other deck done in the same directory |
scripts/add_slide.py unpacked/ slide2.xml [--after slideN.xml] |
Duplicate a slide (or a slideLayoutN.xml) with all the package bookkeeping. Also takes a .pptx directly with -o out.pptx |
scripts/clean.py unpacked/ |
Delete slides, media, and rels no longer referenced. Run after <p:sldIdLst> is final |
scripts/office/validate.py deck.pptx [--original src.pptx] |
Schema, relationship, content-type, chart and slide checks; each failure names its fix. Pass --original for any template-derived deck — it baselines the schema checks against the template, so the template's own XSD errors don't read as yours |
scripts/office/soffice.py --headless --convert-to pdf deck.pptx |
LibreOffice wrapper — bare soffice hangs in this sandbox |
Creating with pptxgenjs — gotchas
pptxgenjs is preinstalled — do not run npm install first; write the script and require('pptxgenjs') directly. Only if that require fails: npm install pptxgenjs. The model knows the API; these are the footguns:
- Set
pres.layoutbefore adding slides. The default canvas isLAYOUT_16x9= 10" × 5.625", not 13.3" wide. Coordinates past the edge are written, not clamped — the shape just isn't on the slide. (LAYOUT_WIDEis 13.3" × 7.5".) - Hex colors: never
#, never 8 digits.color: "FF0000". Both"#FF0000"and alpha baked into the hex ("00000020") corrupt the file. For translucency:transparency: 0-100on fills and images,opacity: 0.0-1.0on shadows — each is silently ignored on the other. - pptxgenjs mutates option objects in place (converts values to EMU on first use). Never share one
shadow/options object across twoadd*calls — build a fresh object each time. - Shadow
offsetmust be ≥ 0 — a negative offset corrupts the file. To cast a shadow upward, useangle: 270with a positive offset. letterSpacingis silently ignored — the real option ischarSpacing.- Lists:
bullet: trueon each item, never a literal•(renders double bullets). SetbreakLine: trueon every array item except the last. Space bulleted paragraphs withparaSpaceAfter, notlineSpacing(huge gaps). - One
new pptxgen()per output file — never reuse an instance. rectRadiusonly works onROUNDED_RECTANGLE, notRECTANGLE.- Gradient fills aren't supported — use a gradient image as the background instead.
- Text boxes have built-in internal padding — set
margin: 0whenever text must align with a shape, line, or icon at the same x. - Speaker notes go in
slide.addNotes("...")(plain text, once per slide), never in a text box on the slide. - Keep charts native. Use
addChart()for everything PowerPoint can chart (pass an array of{type, data, options}for combos). For PowerPoint-native features the library doesn't expose (trendlines, error bars), compute the extra series yourself or post-process the generated OOXML — do not fall back to a rendered image. Only chart types PowerPoint has no native form for (Sankey, network, chord) go in as images. - Default charts render bare — no title, no data labels, dated palette. Set
showTitle+title,showValue: true+dataLabelPosition,chartColors: [...]from your palette, and quiet the frame (catAxisLabelColor/valAxisLabelColor,valGridLine: { color, size },catGridLine: { style: "none" },showLegend: falsefor a single series). - On a stacked bar or column chart,
dataLabelPositionmust bectr,inEnd, orinBase.outEndcorrupts the file. - A combo series using
secondaryValAxis/secondaryCatAxisneeds bothvalAxesandcatAxeson the chart options, two entries each. Without them pptxgenjs writes axis ids it never declares, and PowerPoint discards that chart and reports the file as corrupt. Supplying onlyvalAxesis not enough. - After
writeFile(), runpython scripts/office/validate.py deck.pptx. It reports the two chart faults above and the slide-XML defects PowerPoint refuses, and names the fix for each. Fix them in your generator, not by hand-editing the packed XML. - Never reorder the children of
<p:presentation>. pptxgenjs writes<p:notesMasterIdLst>right after<p:sldIdLst>and points both masters at one theme part. PowerPoint reads that happily — move the element and the same deck becomes unopenable. - Icons: render
react-iconsto SVG (ReactDOMServer.renderToStaticMarkup), rasterize withsharpat ≥256px, and insert viaaddImage({ data: "image/png;base64," + buf.toString("base64") })— theimage/png;base64,prefix is required (react-icons,react,react-dom, andsharpare preinstalled —npm install react-icons react react-dom sharponly if a require fails).
What ships with it
55 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.
- LICENSE.txt 1.4 KB
- scripts/__init__.py 0 B runs code
- scripts/add_slide.py 14 KB runs code
- scripts/clean.py 10 KB runs code
- scripts/office/helpers/__init__.py 3.3 KB runs code
- scripts/office/helpers/pptx_chart.py 5.7 KB runs code
- scripts/office/helpers/pptx_slide.py 1.6 KB runs code
- scripts/office/helpers/pptx_theme.py 3.4 KB runs code
- scripts/office/schemas/ecma/fouth-edition/opc-contentTypes.xsd 1.9 KB
- scripts/office/schemas/ecma/fouth-edition/opc-coreProperties.xsd 2.5 KB
- scripts/office/schemas/ecma/fouth-edition/opc-digSig.xsd 2.8 KB
- scripts/office/schemas/ecma/fouth-edition/opc-relationships.xsd 1.3 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/dml-chart.xsd 73 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/dml-chartDrawing.xsd 6.8 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/dml-diagram.xsd 50 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/dml-lockedCanvas.xsd 624 B
- scripts/office/schemas/ISO-IEC29500-4_2016/dml-main.xsd 148 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/dml-picture.xsd 1.2 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/dml-spreadsheetDrawing.xsd 8.7 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/dml-wordprocessingDrawing.xsd 14 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/pml.xsd 82 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/shared-additionalCharacteristics.xsd 1.2 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/shared-bibliography.xsd 7.2 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/shared-commonSimpleTypes.xsd 6.2 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/shared-customXmlDataProperties.xsd 1.2 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/shared-customXmlSchemaProperties.xsd 880 B
- scripts/office/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesCustom.xsd 2.5 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesExtended.xsd 3.4 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/shared-documentPropertiesVariantTypes.xsd 7.3 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/shared-math.xsd 23 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/shared-relationshipReference.xsd 1.3 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/sml.xsd 237 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/vml-main.xsd 26 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/vml-officeDrawing.xsd 25 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/vml-presentationDrawing.xsd 535 B
- scripts/office/schemas/ISO-IEC29500-4_2016/vml-spreadsheetDrawing.xsd 5.6 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/vml-wordprocessingDrawing.xsd 3.9 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/wml.xsd 167 KB
- scripts/office/schemas/ISO-IEC29500-4_2016/xml.xsd 4.5 KB
- scripts/office/schemas/mce/mc.xsd 3.1 KB
- scripts/office/schemas/microsoft/wml-2010.xsd 26 KB
- scripts/office/schemas/microsoft/wml-2012.xsd 3.7 KB
- scripts/office/schemas/microsoft/wml-2018.xsd 901 B
- scripts/office/schemas/microsoft/wml-cex-2018.xsd 1.7 KB
- scripts/office/schemas/microsoft/wml-cid-2016.xsd 1002 B
- scripts/office/schemas/microsoft/wml-sdtdatahash-2020.xsd 600 B
- scripts/office/schemas/microsoft/wml-symex-2015.xsd 745 B
- scripts/office/soffice.py 7.8 KB runs code
- scripts/office/validate.py 6.0 KB runs code
- scripts/office/validators/__init__.py 336 B runs code
- scripts/office/validators/base.py 33 KB runs code
- scripts/office/validators/docx.py 17 KB runs code
- scripts/office/validators/pptx.py 16 KB runs code
- scripts/office/validators/redlining.py 11 KB runs code
- scripts/thumbnail.py 9.6 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.
- 8d ago First seen · 247 lines · 171 tokens per session scan A 4f8647224400
pptx is a skill published in the GitHub repository K-Dense-AI/scientific-agent-skills (44,469 stars, last pushed today), licensed MIT. It adds 171 tokens to every session and 5,409 once invoked, about $0.0009 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 2026-09-03.
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