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Rstudio Runner
by
Prof. Dr. rer. nat.
· GitHub ↗
· v4.0.1
· MIT-0
239
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0
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0
Active Installs
7
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Install in OpenClaw
/install rstudio-runner
Description
AI-powered bioinformatics analysis platform with intelligent auto-organization and comprehensive Chinese report generation. Auto-detects sequencing data, gen...
Usage Guidance
This skill appears coherent for helping run R/RStudio bioinformatics workflows, but exercise normal caution before executing generated scripts or analyses: 1) Review the generated R scripts (01_*.R etc.) before running to ensure they do only what you expect. 2) Run analyses on non-sensitive test data or inside an isolated environment/container if you have patient data or confidential datasets. 3) Install required R packages from trusted CRAN/Bioconductor sources, and inspect package install steps. 4) Confirm the authorship/contact details if provenance matters. 5) Be aware that the agent may run scripts (it can be invoked autonomously by the model by default); if you want manual control, avoid granting autonomous execution or invoke the skill only interactively.
Capability Analysis
Type: OpenClaw Skill
Name: rstudio-runner
Version: 4.0.1
The 'rstudio-runner' skill (BioinfoAI-Assistant) is a specialized tool for automating bioinformatics workflows, including single-cell and bulk RNA-seq analysis. It provides a structured framework for generating R scripts, organizing output files, and creating Chinese analysis reports. The instructions in SKILL.md and the configuration in skill.json are entirely consistent with its stated purpose, showing no signs of data exfiltration, malicious execution, or harmful prompt injection. The skill appears to be a legitimate academic tool attributed to researchers at the Guangxi Academy of Medical Sciences.
Capability Assessment
Purpose & Capability
Name, description, SKILL.md and skill.json all describe generating R scripts, running analyses in R/RStudio, and organizing outputs. The declared requirements (R, RStudio, Rscript and common bioinformatics R packages) match the stated capabilities (Seurat, DESeq2 workflows, report generation). There are no unrelated credentials, binaries, or surprising requirements.
Instruction Scope
SKILL.md instructs the agent to detect sequencing files, create a structured folder layout, generate R scripts, and run them in RStudio — all within the stated bioinformatics scope. The instructions do not request arbitrary system files, credentials, or external endpoints, and there are no vague 'gather whatever context you need' directives. Triggers target sequencing-related files/directories and relevant keywords.
Install Mechanism
There is no automated install spec or archive download included; this is instruction-only. User-facing install commands are standard (clawhub/openclaw CLI or manual placement). No downloads or extract steps are present that would write or execute arbitrary code on install.
Credentials
The skill does not declare or require environment variables, credentials, or config paths. The packages and binaries it lists (R, RStudio, Rscript, and R packages) are proportional to the stated functionality.
Persistence & Privilege
The skill is not marked always:true and is user-invocable. disable-model-invocation is false (normal default), but the skill does not request persistent system-wide privileges or attempt to modify other skills' configs. There is no indication it writes persistent agents/credentials beyond creating project folders and outputs in the user's workspace.
How to Use
- Make sure OpenClaw is installed (local or Docker)
- Run the install command in chat:
/install rstudio-runner - After installation, invoke the skill by name or use
/rstudio-runner - Provide required inputs per the skill's parameter spec and get structured output
Version History
v4.0.1
- Added an "安装方法 / Installation" section in SKILL.md, including instructions for installation via ClawHub, OpenClaw CLI, and manual steps.
- Listed system requirements and required R packages in the documentation.
- No code or interface changes; update is documentation-only.
v4.0.0
v4.0.0 is a major update adding Chinese language report generation and associated enhancements.
- Added automatic generation of comprehensive Chinese analysis reports for all workflows.
- Updated descriptions, folder names, and report sections to support both Chinese and English, with a focus on Chinese as default for outputs and documentation.
- Expanded triggers to include the new keyword “生成报告”.
- Revised documentation to clearly explain the new Chinese report features and workflow.
- Maintained all auto-organization and script generation functions from previous versions.
v3.0.0
**BioinfoAI-Assistant v3.0.0 introduces intelligent auto-organization to all outputs and a refined, fully structured analysis workflow.**
- New project folder system: All scripts, plots, tables, reports, R objects, logs, and reproducibility files are auto-organized into standardized subfolders.
- Every file from scripts to figures and results is saved in a pre-defined location; no more manual sorting.
- Expanded supported file/folder triggers for more seamless analysis start.
- Workflow and documentation streamlined to emphasize "analyze once, organize forever."
- All outputs tracked as they are generated, with auto-repair and re-organization if analysis errors occur.
- Updated name, description, and metadata to reflect broad auto-organization and clear author/institution information.
v2.0.0
**Major upgrade: Transformed into an AI-powered bioinformatics analysis platform.**
- Auto-detects sequencing data type, species, and data quality.
- Recommends optimal analysis strategies and pipeline workflows using AI.
- Automatically generates structured project folders and customized R scripts with documentation.
- Opens scripts in RStudio with real-time monitoring and output tracking.
- Includes intelligent error detection and auto-correction for seamless execution.
- Broadened trigger support to include sequencing data files and specialized bioinformatics keywords.
v1.0.2
- Added 赵净洁 as co-author, including contact information in documentation
- Updated author sections and acknowledgments in SKILL.md to reflect co-authorship
- No functional changes to skill triggers or core usage
v1.0.1
- Added author’s name and contact details (including institution and email) in English and Chinese.
- Expanded documentation with installation instructions, detailed usage examples, pane descriptions, and support contact.
- Clarified supported languages (English and Chinese) for commands and auto-activation.
- Improved instructions for common workflows and execution steps in RStudio.
- Refined formatting and organization for readability.
v1.0.0
Initial release of rstudio-runner.
- Launch and open .R or .Rmd files directly in RStudio with one click.
- Supports interactive script execution, step-by-step monitoring, and plotting in the RStudio GUI.
- Auto-activates on upload of R scripts or trigger keywords in English and Chinese.
- Designed for hands-on visual analysis, debugging, and plotting within RStudio, especially for HCC scRNA-seq workflows.
Metadata
Frequently Asked Questions
What is Rstudio Runner?
AI-powered bioinformatics analysis platform with intelligent auto-organization and comprehensive Chinese report generation. Auto-detects sequencing data, gen... It is an AI Agent Skill for Claude Code / OpenClaw, with 239 downloads so far.
How do I install Rstudio Runner?
Run "/install rstudio-runner" in the OpenClaw or Claude Code chat to install it in one step — no extra setup required.
Is Rstudio Runner free?
Yes, Rstudio Runner is completely free, licensed under MIT-0. You can download, install and use it at no cost.
Which platforms does Rstudio Runner support?
Rstudio Runner is cross-platform and runs anywhere OpenClaw / Claude Code is available (cross-platform).
Who created Rstudio Runner?
It is built and maintained by Prof. Dr. rer. nat. (@lingzhangmeng); the current version is v4.0.1.
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