13c-metabolic-flux
Estimates intracellular metabolic fluxes from steady-state carbon-13 isotope-tracing measurements using validated atom maps,โฆ
Optional OpenRouter key for explicit Perplexity use.
Claude Code
$ npx -y skills add K-Dense-AI/scientific-agent-skills --skill research-lookup --agent claude-code
Codex
$ npx skills add K-Dense-AI/scientific-agent-skills --skill research-lookup -a codex -y
Cursor
$ npx skills add K-Dense-AI/scientific-agent-skills --skill research-lookup -a cursor -y
Gemini CLI
$ npx skills add K-Dense-AI/scientific-agent-skills --skill research-lookup -a gemini-cli -y
GitHub Copilot
$ npx skills add K-Dense-AI/scientific-agent-skills --skill research-lookup -a github-copilot -y
OpenCode
$ npx skills add K-Dense-AI/scientific-agent-skills --skill research-lookup -a opencode -y
Windsurf
$ npx skills add K-Dense-AI/scientific-agent-skills --skill research-lookup -a windsurf -y
name: research-lookup
description: "Compiles current scholarly evidence for a scientific manuscript or research brief when the user explicitly asks to gather literature, references, background evidence, competing findings, or a manuscript research packet. Uses Parallel Search by default, Parallel Extract for source retrieval, Parallel Research for explicitly deep/exhaustive work, optional explicit Parallel Chat, and optional Perplexity only when requested or allowed as a failure fallback."
license: MIT license
compatibility: Requires Python 3.10+ and network access; targets parallel-web-tools CLI 0.9.3 for Search, Extract, and Research. Explicit Chat requires requests and PARALLEL_API_KEY; optional Perplexity through openrouter.ai requires requests and OPENROUTER_API_KEY.
metadata:
version: "1.7"
last-reviewed: "2026-09-30"
skill-author: K-Dense Inc.
openclaw:
primaryEnv: PARALLEL_API_KEY
envVars:
- name: PARALLEL_API_KEY
required: false
description: Parallel API key; CLI login may be used instead.
- name: OPENROUTER_API_KEY
required: false
description: Optional OpenRouter key for explicit Perplexity use.Compile the external evidence needed to plan and write a high-quality scientific manuscript. The default academic workflow targets **60 verified, unique references** and produces a manuscript-ready research packet rather than a loose list of links. Here `verified_references` counts successful retrieval of nonempty Extract excerpts, excluding flagged retractions. It does not establish bibliographic identity, claim support, peer review, or absence of corrections; those require source review.
Use this skill when the user explicitly wants:
Do not activate it for casual factual questions that do not need research, private or unpublished material, or a claim that can be answered from user-provided files. Query text is sent to Parallel. It is sent to OpenRouter only when Perplexity is explicitly selected or the user enables that fallback.
This skill compiles **external evidence**. It cannot supply the user's unpublished study data, decide what their Results show, or guarantee systematic-review completeness. For a PRISMA-style systematic review, use `literature-review` for protocols, database-specific searching, screening, exclusion reasons, and risk of bias.
| Need | Backend | Selection | |---|---|---| | Manuscript literature and references | Parallel Search + Extract | Default; use `--academic` | | Fast bounded web lookup | Parallel Search | Use `--no-academic` | | Deep/exhaustive multi-source report | Parallel Research | Explicit `--force-backend research` | | OpenAI-compatible synthesis with research basis | Parallel Chat | Explicit `--force-backend chat` | | Optional alternative academic search | Perplexity via OpenRouter | Explicit or enabled failure fallback |
Important compatibility behavior:
only through explicit backend selection.
silently switch the provider to Perplexity.
and the existing result envelope remain supported.
Use the user's available context to constrain retrieval:
The script accepts a JSON object through `--context-file`. Do not invent missing study details. A bare topic is supported, but the packet will flag its section briefs as broad.
Example:
{
"research_question": "How does intervention X affect outcome Y?",
"study_type": "prospective cohort",
"population": "adults with condition Z",
"exposure": "intervention X",
"comparator": "standard care",
"outcomes": ["primary outcome Y", "adverse events"],
"field": "clinical epidemiology",
"target_journal": "Journal Name"
}From the repository root (illustrative paid-service run; review its scope first):
python skills/research-lookup/scripts/research_lookup.py \ "Evidence relevant to the manuscript's research question" \ --academic \ --target-references 60 \ --context-file manuscript-context.json \ --packet-dir sources/manuscript-research \ --json
The academic pipeline runs bounded `advanced` Search passes for:
1. recent peer-reviewed primary studies 2. systematic reviews, meta-analyses, and consensus evidence 3. seminal and foundational publications 4. methods, protocols, validation, benchmarks, and mechanisms 5. contradictory, null, negative, replication, and limitation evidence 6. an unrestricted companion search when filtered passes do not reach the target
It prioritizes PubMed/PMC, Europe PMC, Crossref, OpenAlex, Semantic Scholar, arXiv/bioRxiv/medRxiv, major journals, and authoritative institutional sources. Domain filters are not treated as exhaustive; the companion pass reduces blind spots.
Search candidates are deduplicated and ranked before batched extraction. Extraction requests source-supported:
-
๐ Claude Scientific Skills is now Scientific Agent Skills. Same skills, broader compatibility โ now works with any AI agent that supports the open Agent Skills standard, not just Claude.
Estimates intracellular metabolic fluxes from steady-state carbon-13 isotope-tracing measurements using validated atom maps,โฆ
Uses the Adaptyv Bio Foundry API and Python SDK to design protein characterization experiments, estimate costs, submit sequences,โฆ
This skill should be used for time series machine learning tasks including classification, regression, clustering, forecasting,โฆ
AlphaGenome API key, free for non-commercial use from deepmind.google.com/science/alphagenome. ALPHA_GENOME_API_KEY is acceptedโฆ
Plans, executes, and documents validation, verification, and transfer of analytical procedures under the governing framework -โฆ
Handles annotated matrices in single-cell analysis, .h5ad and Zarr files, and integration with the scverse ecosystem. This is theโฆ
Use this skill to extract structured Markdown/JSON from PDFs and document imagesโtables with cell-level precision, formulas asโฆ