How does it assist with Python-based automation?

It provides deep documentation and code examples for the dxpy SDK, including data object handlers, API method documentation, and error handling patterns for automated scripts.

Do I need a DNAnexus account to use this skill?

Yes, this skill is designed to help you interact with the DNAnexus platform, which requires an active account and the installation of the DNAnexus SDK (dx-toolkit/dxpy).

What is the DNAnexus Integration skill?

It is a specialized capability for Claude Code that provides domain-specific guidance, code patterns, and best practices for developing and managing genomics workflows on the DNAnexus cloud platform.

Is it suitable for high-throughput sequencing data?

Yes, the skill specifically covers patterns for managing and processing large genomics files such as FASTQ, BAM, and VCF files within the cloud environment.

Can this skill help with dxapp.json configuration?

Absolutely. It includes detailed reference information for writing dxapp.json files, defining input/output specs, managing system dependencies, and configuring computational resources.

DNAnexus Integration

Name: DNAnexus Integration
Author: K-Dense-AI

byK-Dense-AI

•

3,719

Data Science & ML

Streamlines genomics pipeline development and data management on the DNAnexus cloud platform using the dxpy Python SDK.

About

This skill empowers Claude to act as an expert assistant for the DNAnexus biomedical data platform. It provides comprehensive support for building and deploying cloud-native genomics apps, managing massive biological datasets like FASTQ and BAM files, orchestrating complex bioinformatics workflows, and utilizing the dxpy Python SDK. Whether you are configuring dxapp.json specifications, handling job execution, or automating large-scale data transfers, this skill provides the patterns and best practices needed to accelerate genomics research and development.

Key Features

Advanced job orchestration patterns for parallel processing and multi-step workflows
3,719 GitHub stars
Comprehensive data management for sequencing files including upload, search, and organization
Dependency and environment configuration including Docker and dxapp.json specifications
End-to-end app development support from skeleton generation to deployment with dx build
Deep integration with the dxpy Python SDK for programmatic platform access

Use Cases

Building and deploying custom bioinformatics tools for variant calling or alignment
Chaining multiple cloud-native analysis steps into a scalable production pipeline
Automating the upload and metadata tagging of high-throughput sequencing data

About

Key Features

Advanced job orchestration patterns for parallel processing and multi-step workflows
3,719 GitHub stars
Comprehensive data management for sequencing files including upload, search, and organization
Dependency and environment configuration including Docker and dxapp.json specifications
End-to-end app development support from skeleton generation to deployment with dx build
Deep integration with the dxpy Python SDK for programmatic platform access

Use Cases

Building and deploying custom bioinformatics tools for variant calling or alignment
Chaining multiple cloud-native analysis steps into a scalable production pipeline
Automating the upload and metadata tagging of high-throughput sequencing data