Can this skill help me write DNAnexus applets in Python?

Yes, it includes detailed patterns for using the dxpy Python SDK, handling input/output data objects, and setting up the required entry points.

What is the DNAnexus Integration skill for Claude Code?

It is a specialized capability that provides Claude with the knowledge to help you build, deploy, and manage genomics applications and data workflows on the DNAnexus platform.

How does this skill assist with workflow orchestration?

It provides templates and best practices for launching jobs, monitoring execution status, and chaining multiple apps together into complex, parallelized pipelines.

Does it support genomics file formats like FASTQ and BAM?

Absolutely. The skill provides specific guidance for managing, searching, and processing common bioinformatics file types within the DNAnexus environment.

Can it help with the dxapp.json configuration?

Yes, it helps define app specifications, manage system dependencies, and integrate Docker containers for reproducible analysis environments.

DNAnexus Integration

Name: DNAnexus Integration
Author: Activer007

byActiver007

Data Science & ML

Automates the development of genomics applications and manages data workflows on the DNAnexus cloud platform.

About

The DNAnexus Integration skill empowers Claude to assist bioinformaticians and developers in building, deploying, and managing cloud-native genomics pipelines. By leveraging specialized knowledge of the dxpy Python SDK and DNAnexus CLI tools, this skill streamlines the creation of apps and applets, automates the management of large-scale sequencing data (FASTQ, BAM, VCF), and orchestrates complex analysis workflows. Whether you are configuring dxapp.json specifications, managing project permissions, or optimizing parallel job execution, this skill provides the domain-specific guidance needed to navigate the DNAnexus ecosystem efficiently.

Key Features

Comprehensive dxpy Python SDK support for programmatic platform interaction
Workflow orchestration and job monitoring for parallel processing
0 GitHub stars
Automated app and applet skeleton generation with dx-app-wizard patterns
dxapp.json configuration assistance including Docker and dependency management
Bioinformatics data management for FASTQ, BAM, and VCF file objects

Use Cases

Building and deploying custom bioinformatics pipelines as DNAnexus apps
Automating batch data uploads and organization for large-scale sequencing projects
Chaining multiple analysis steps into scalable, multi-stage workflows

About

Key Features

Comprehensive dxpy Python SDK support for programmatic platform interaction
Workflow orchestration and job monitoring for parallel processing
0 GitHub stars
Automated app and applet skeleton generation with dx-app-wizard patterns
dxapp.json configuration assistance including Docker and dependency management
Bioinformatics data management for FASTQ, BAM, and VCF file objects

Use Cases

Building and deploying custom bioinformatics pipelines as DNAnexus apps
Automating batch data uploads and organization for large-scale sequencing projects
Chaining multiple analysis steps into scalable, multi-stage workflows