Does it support Docker and custom dependencies?

Yes, it provides guidance on integrating Docker containers and managing system dependencies (execDepends) within the dxapp.json configuration file.

How do I authenticate my session using this skill?

The skill follows the standard DX Toolkit authentication flow, utilizing 'dx login' to establish a secure session for your project work.

DNAnexus is a cloud-based platform specifically designed for the secure storage and high-throughput analysis of biomedical data, particularly genomic sequencing data.

Can I use this skill for batch data processing?

Yes, the skill includes specific patterns for searching data objects by properties and launching parallel jobs across multiple samples to maximize platform efficiency.

How does this skill help with bioinformatics app development?

It provides standardized patterns for creating app skeletons, writing entry points, handling platform-specific I/O, and deploying builds via the DNAnexus command-line tools.

DNAnexus Genomics Platform Integration

Name: DNAnexus Genomics Platform Integration
Author: Activer007

byActiver007

Ciencia de Datos y ML

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

Acerca de

This skill empowers developers and bioinformaticians to interact seamlessly with the DNAnexus platform through Claude. It provides specialized knowledge for building and deploying cloud-native apps (applets), managing genomic data objects like FASTQ, BAM, and VCF files, and utilizing the dxpy Python SDK for automated pipeline execution. Whether you are setting up dxapp.json configurations, monitoring parallel job executions, or searching across vast project resources, this skill provides the architectural patterns and best practices needed for efficient cloud-based biomedical data analysis.

Características Principales

App & Applet Development: Templates for dx-app-wizard, entry point decorators, and deployment workflows.
dxpy SDK Support: Programmatic platform interaction using the Python SDK for automation and scripts.
Dependency Management: Guidance for dxapp.json specifications, Docker integration, and resource selection.
Job Orchestration: Patterns for launching, monitoring, and chaining jobs into multi-step analysis pipelines.
Genomic Data Operations: High-level management of files, records, and metadata for bioinformatics.
0 GitHub stars

Casos de Uso

Automating the upload and organization of high-throughput sequencing data using Python scripts.
Building and deploying a custom variant calling pipeline as a DNAnexus applet.
Managing large-scale parallel job submissions and monitoring execution status across projects.

Acerca de

Características Principales

App & Applet Development: Templates for dx-app-wizard, entry point decorators, and deployment workflows.
dxpy SDK Support: Programmatic platform interaction using the Python SDK for automation and scripts.
Dependency Management: Guidance for dxapp.json specifications, Docker integration, and resource selection.
Job Orchestration: Patterns for launching, monitoring, and chaining jobs into multi-step analysis pipelines.
Genomic Data Operations: High-level management of files, records, and metadata for bioinformatics.
0 GitHub stars

Casos de Uso

Automating the upload and organization of high-throughput sequencing data using Python scripts.
Building and deploying a custom variant calling pipeline as a DNAnexus applet.
Managing large-scale parallel job submissions and monitoring execution status across projects.