How do I authenticate with DNAnexus using this skill?

The skill guides you through using the 'dx login' command or setting up environment-based authentication via the DNAnexus CLI (dx-toolkit).

Can I use Docker with my DNAnexus apps?

Absolutely. The skill covers configuring dxapp.json to integrate Docker containers and manage system dependencies for complex analysis environments.

Does this skill support the dxpy Python SDK?

Yes, it includes comprehensive patterns and documentation for using the dxpy library to automate platform tasks, data management, and job execution.

What is the DNAnexus Integration for Claude Code?

It is a specialized skill that helps developers build, deploy, and manage genomics applications and data on the DNAnexus cloud platform using Claude's AI assistance.

Can I manage FASTQ and BAM files with this skill?

Yes, the skill provides specific patterns and SDK commands for handling, uploading, and processing common bioinformatics file formats like FASTQ, BAM, and VCF.

DNAnexus Integration

Name: DNAnexus Integration
Author: Activer007

byActiver007

Data Science & ML

Streamlines the development and management of genomics pipelines on the DNAnexus cloud platform.

About

This skill provides a comprehensive toolkit for bioinformaticians and developers working with the DNAnexus cloud platform. It enables seamless creation and deployment of apps and applets, management of large-scale genomic data objects such as FASTQ, BAM, and VCF files, and programmatic control via the dxpy Python SDK. Whether you are building automated workflows, running parallelized analyses, or organizing project-level resources, this skill offers the patterns and documentation needed to optimize genomics research and data processing in the cloud.

Key Features

0 GitHub stars
Systematic data organization with advanced metadata tagging and search
App and applet development using dx-app-wizard and dx build
Programmatic data operations for uploading, downloading, and searching genomic files
Job execution and multi-step workflow orchestration via dxpy
Dependency management and Docker integration through dxapp.json configuration

Use Cases

Developing custom analysis tools with complex environment dependencies
Automating bioinformatics pipelines for alignment and variant calling
Managing large-scale sequencing datasets across multiple cloud projects

About

Key Features

0 GitHub stars
Systematic data organization with advanced metadata tagging and search
App and applet development using dx-app-wizard and dx build
Programmatic data operations for uploading, downloading, and searching genomic files
Job execution and multi-step workflow orchestration via dxpy
Dependency management and Docker integration through dxapp.json configuration

Use Cases

Developing custom analysis tools with complex environment dependencies
Automating bioinformatics pipelines for alignment and variant calling
Managing large-scale sequencing datasets across multiple cloud projects