What is the DNAnexus Integration skill?

It is a specialized capability for Claude Code that provides deep knowledge and patterns for interacting with the DNAnexus biomedical data platform, from app development to data management.

Does this skill support the dxpy Python SDK?

Yes, it includes detailed references for the dxpy Python SDK to help you automate data operations, search for objects, and manage job executions programmatically.

Can I use this to build and deploy DNAnexus apps?

Absolutely. The skill provides guidance on creating dxapp.json files, managing dependencies, using Docker, and building applets for the platform.

How does it handle genomic data files?

The skill includes patterns for handling common bioinformatics formats like FASTQ, BAM, and VCF, including uploading, downloading, and searching within project folders.

Can it help with workflow orchestration?

Yes, it provides patterns for chaining multiple applets together, creating subjobs for parallel processing, and monitoring job status.

DNAnexus Integration

Name: DNAnexus Integration
Author: pur3v4d3r

bypur3v4d3r

•

Data Science & ML

Integrates Claude with the DNAnexus cloud genomics platform to develop bioinformatics pipelines, manage data, and orchestrate workflows.

About

The DNAnexus Integration skill empowers developers to seamlessly build, deploy, and manage genomics applications on the DNAnexus cloud platform. It provides specialized support for the dxpy Python SDK, applet development with dxapp.json, data object management for sequencing files (FASTQ, BAM, VCF), and multi-step workflow orchestration. This skill is ideal for bioinformatics engineers and researchers who need to automate complex genomic data processing, manage large-scale cloud projects, and monitor high-performance computing jobs directly within their AI-assisted development environment.

Key Features

Python SDK (dxpy) integration for programmatic platform interaction
Dependency management via dxapp.json, assets, and Docker containers
Automated job execution and multi-step workflow orchestration
Data management for genomics files including upload, download, and search
Comprehensive app and applet development using dx-app-wizard and dx build
1 GitHub stars

Use Cases

Building and deploying production-grade bioinformatics pipelines
Monitoring, debugging, and scaling complex cloud-based genomic analyses
Managing large-scale sequencing data organization and project permissions

About

Key Features

Python SDK (dxpy) integration for programmatic platform interaction
Dependency management via dxapp.json, assets, and Docker containers
Automated job execution and multi-step workflow orchestration
Data management for genomics files including upload, download, and search
Comprehensive app and applet development using dx-app-wizard and dx build
1 GitHub stars

Use Cases

Building and deploying production-grade bioinformatics pipelines
Monitoring, debugging, and scaling complex cloud-based genomic analyses
Managing large-scale sequencing data organization and project permissions