A high-precision data analysis skill designed for automated DNA sequencing quality assessment and variant confirmation.
Install & Download
1. ClawHub CLI
The fastest way to install a skill directly from the registry.
npx clawhub@latest install sanger-chromatogram-qa
2. Manual Installation
Copy the skill folder to one of these locations
~/.openclaw/skills/ <project>/skills/ Priority: Workspace > Local > Bundled
3. Prompt Installation
Copy this prompt to OpenClaw to install it automatically.
Help me install sanger-chromatogram-qa using Clawhub. If Clawhub is not installed, install it first (npm i -g clawhub).
Prefer to download?
Get the raw skill files in a ZIP archive.
What is Sanger Chromatogram QA?
Sanger Chromatogram QA is a specialized tool within the Openclaw Skills library designed for bioinformaticians and researchers who require rigorous quality control for DNA sequencing data. It provides a structured framework for analyzing .ab1 files, ensuring that data analysis workflows are executed with explicit assumptions and clearly defined output boundaries.
This skill bridges the gap between raw sequencing data and actionable insights by providing a reproducible execution path. By leveraging standardized Python scripts, it allows users to maintain high scientific integrity through documented fallback paths and disciplined output reporting, making it an essential component for laboratory data integrity.
Sanger Chromatogram QA Use Cases
- Mutation verification: Confirm the presence of specific genetic mutations with high confidence.
- Clone confirmation: Verify that synthetic or cloned DNA sequences match the intended design.
- Genotyping QC: Perform quality control on genotyping assays to ensure reliable call rates.
- SNP validation: Authenticate Single Nucleotide Polymorphisms detected in primary screens.
How Sanger Chromatogram QA Works
- Requirement Analysis: The skill confirms the user's objective and validates that all non-negotiable constraints and inputs are present.
- Scope Validation: It checks the request against documented capabilities to prevent unsupported assumptions or scope creep.
- Execution: The system runs the packaged
scripts/main.pyusing provided inputs such as chromatogram files and reference sequences. - Structured Reporting: A final result is generated, clearly separating the core deliverables from assumptions, risks, and unresolved items.
- Error Mitigation: If inputs are missing or execution fails, the skill provides a specific breakdown of the blockage and offers a manual fallback path.
Sanger Chromatogram QA Setup
To integrate this tool from the Openclaw Skills collection, ensure you have Python 3.10+ installed and follow these steps:
# Navigate to the skill directory
cd "scientific-skills/Data Analytics/sanger-chromatogram-qa"
# Install required dependencies
pip install -r requirements.txt
# Verify the script integrity
python -m py_compile scripts/main.py
# Access help documentation
python scripts/main.py --help
Sanger Chromatogram QA Data Schema & Taxonomy
The skill utilizes a structured data input/output model to ensure consistency across genomic analysis tasks:
| Data Type | Parameter | Description |
|---|---|---|
| Input | ab1_file |
The raw Sanger chromatogram trace file. |
| Input | expected_seq |
The reference DNA sequence for alignment. |
| Input | variant_pos |
The specific coordinate of the expected mutation site. |
| Output | Quality Scores | Numerical assessment of base-calling reliability. |
| Output | Peak Detection | Identification of mixed or heterozygous peaks. |
| Output | Confirmation | Explicit validation of variants or repeat recommendations. |
Sanger Chromatogram QA Advanced Features
- Explicit Assumption Tracking: Automatically documents every logical leap made during analysis to ensure audit-ready results.
- Packaged Executable Paths: Utilizes a standardized
scripts/main.pyentry point for seamless integration into larger automated pipelines. - Bounded Deliverables: Prevents undocumented side effects by strictly limiting file system access to the designated workspace.
- Audit-Ready Validation: Includes built-in commands for rapid script parsing and help documentation access.
SKILL.md
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