dnanexus-integration

Interact with the DNAnexus cloud genomics platform using the dxpy Python SDK.

8|Updated Jan 13, 2026

Search Tags:#bioinformatics #genomics #pipeline development #dxpy #dnanexus #cloud platform

Ready to run

npx skills add https://github.com/hxk622/TokenDance --skill dnanexus-integration-hxk622

💬 Prompt for ChatGPT / Claude Chat▼

Please help me install this Agent Skill.
Skill: dnanexus-integration
Source: https://github.com/hxk622/TokenDance/tree/main/backend/app/skills/builtin/scientific/lab-automation/dnanexus-integration
Command: npx skills add https://github.com/hxk622/TokenDance --skill dnanexus-integration-hxk622

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill includes scripts (resource) and references (resource) components.

What problem does it solve?

This Skill simplifies complex interactions with the DNAnexus cloud platform, enabling efficient development, data management, and execution of genomics pipelines.

Core Features & Use Cases

App Development: Build, deploy, and test DNAnexus apps and applets.
Data Operations: Upload, download, search, and organize genomic data.
Job Execution & Workflows: Run analyses, monitor jobs, and orchestrate complex pipelines.
Python SDK (dxpy): Programmatically control the platform for automation.
Use Case: A bioinformatician needs to set up a new variant calling pipeline on DNAnexus. They can use this Skill to define the app, upload reference genomes, run the analysis job, and download the resulting VCF files.

Quick Start

Use the dnanexus-integration skill to upload the file 'sample_data.fastq.gz' to your project 'project-abcd'.

Frequently Asked Questions about dnanexus-integration

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

FAQPage Schema

How do I build a genomics pipeline on the DNAnexus cloud platform?▼

To build a genomics pipeline on DNAnexus, use the dxpy Python SDK to define apps, upload reference genomes, run analysis jobs, and orchestrate workflows for processing genomic data.

Can I use dxpy to automate uploading FASTQ files and downloading VCF results?▼

Yes, you can use the dxpy Python SDK to programmatically automate data operations on DNAnexus, including uploading FASTQ files, executing variant calling workflows, and downloading the resulting VCF files.

What is the best way to orchestrate complex bioinformatics workflows using dxpy?▼

The best way to orchestrate complex bioinformatics workflows with dxpy is by utilizing its job execution and monitoring functions to run sequential app analyses and manage data objects within your DNAnexus project.

Does DNAnexus integration support deploying and testing custom bioinformatics apps?▼

DNAnexus integration supports app development by allowing you to build, deploy, and test custom bioinformatics apps and applets directly on the cloud platform using the dxpy SDK.

How do I manage genomic data objects like BAM files in my DNAnexus project?▼

You can manage genomic data objects like BAM files by using the data operation features of the dxpy SDK to search, organize, upload, and download data within your DNAnexus project environment.