dnanexus-integration

Connect to DNAnexus for genomic data management and pipeline execution.

3|Updated Apr 17, 2026

Search Tags:#workflow execution #data analysis #genomics #python sdk #dna nexus

Ready to run

npx skills add https://github.com/RamanEbrahimi/raman-marketplace --skill dnanexus-integration-ramanebrahimi

💬 Prompt for ChatGPT / Claude Chat▼

Please help me install this Agent Skill.
Skill: dnanexus-integration
Source: https://github.com/RamanEbrahimi/raman-marketplace/tree/main/plugins/agentic-research/skills/scientific-skills/dnanexus-integration
Command: npx skills add https://github.com/RamanEbrahimi/raman-marketplace --skill dnanexus-integration-ramanebrahimi

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires dxpy, and includes scripts (resource) and references (resource) and assets (resource) components.

What problem does it solve?

Streamlines the integration of DNAnexus, the cloud genomics platform, into your genomic pipeline development and execution.

Core Features & Use Cases

DNAnexus Access: Connect and manage data objects, apps/applets, and workflows within the DNAnexus ecosystem.
Data Management: Upload, download, and organize genomic data files and records.
Workflow Execution: Run genomic analysis workflows, monitor progress, and manage jobs.
SDK Integration: Utilize the dxpy Python SDK for programmatic access and automation.

Quick Start

To upload a sequencing file and analyze it using DNAnexus, execute the following command: dx run applet-xxxx -i reads=file-xxxx -o results=file-result

Frequently Asked Questions about dnanexus-integration

High-intent search queries and answers about installing and using this skill.

FAQPage Schema

How do I run genomic analysis workflows on the DNAnexus platform?▼

To run genomic analysis workflows on the DNAnexus platform, use the dxpy Python SDK to execute commands like `dx run` with your applet and input file identifiers. This allows you to initiate jobs and monitor pipeline progress programmatically.

Do I need a DNAnexus account and dxpy SDK to manage genomic data?▼

Yes, you need an active DNAnexus account and the dxpy Python SDK installed to manage genomic data. These prerequisites enable full functionality for uploading, downloading, and organizing sequencing files within the platform ecosystem.

What is the best way to integrate DNAnexus into an existing genomics pipeline?▼

The best way to integrate DNAnexus into genomics pipelines is by utilizing the dxpy Python SDK for programmatic access. This method supports applet deployment, data management, and job monitoring to streamline your workflow execution.

How does data management work for sequencing files in DNAnexus?▼

Data management for sequencing files in DNAnexus works by connecting users to the platform to upload, download, and organize genomic data files and records. You manage these data objects directly through the dxpy SDK.

Can I monitor job progress and manage app deployment with dxpy?▼

Yes, you can monitor job progress and manage app deployment with dxpy. The SDK provides programmatic access to automate workflow execution, track job status, and handle applet and app deployment within the DNAnexus environment.

What are the limitations of using dxpy for genomic data analysis?▼

A limitation of using dxpy for genomic data analysis is that it requires a DNAnexus account and proper SDK installation to function. Without these environment prerequisites, the platform integration and pipeline execution capabilities are inaccessible.