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dnanexus-integration

Interact with the DNAnexus platform using the Python SDK and CLI.

557|98|Updated Nov 7, 2025
Search Tags:#data management#bioinformatics#genomics#cloud computing#pipeline development#dxpy#dnanexus
One-click install
npx skills add https://github.com/jimmc414/Kosmos --skill dnanexus-integration-jimmc414
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: dnanexus-integration
Source: https://github.com/jimmc414/Kosmos/tree/main/kosmos-claude-scientific-skills/scientific-skills/dnanexus-integration
Command: npx skills add https://github.com/jimmc414/Kosmos --skill dnanexus-integration-jimmc414

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill includes references (resource) components.

What problem does it solve?

This Skill provides comprehensive guidance and tools for interacting with the DNAnexus cloud platform, enabling efficient genomics data analysis and pipeline development.

Core Features & Use Cases

  • App Development: Build, deploy, and manage applications and applets on DNAnexus.
  • Data Operations: Upload, download, search, and organize files and records.
  • Job Execution & Workflows: Run analyses, monitor jobs, and orchestrate complex pipelines.
  • Python SDK (dxpy): Programmatically control the platform for automation and custom solutions.
  • Configuration & Dependencies: Define app metadata and manage software requirements.
  • Use Case: A bioinformatician needs to build a new variant calling pipeline on DNAnexus. They can use this Skill to learn how to structure their app, manage input/output files, define dependencies, and run the pipeline efficiently.

Quick Start

Use the dnanexus-integration skill to upload a local file named 'sample.fastq' to your default project.

Frequently Asked Questions about dnanexus-integration

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I upload local files to DNAnexus using dxpy?▼

To upload local files to DNAnexus using dxpy, you can use the dnanexus-integration skill to facilitate data operations. It enables you to upload a local file, such as 'sample.fastq', directly to your default project.

What is the best way to build a bioinformatics pipeline on DNAnexus?▼

Building a bioinformatics pipeline on DNAnexus involves structuring apps, managing input/output files, and defining dependencies. This skill provides comprehensive guidance for app development and workflow orchestration for bioinformatics pipelines.

Can I use Python SDK for job execution and monitoring on the DNAnexus cloud platform?▼

Yes, you can use the Python SDK (dxpy) for job execution and monitoring on the DNAnexus cloud platform. This skill enables programmatically controlling the platform for automation, running analyses, and orchestrating complex workflows.

Does DNAnexus support regional deployment options for genomics apps?▼

DNAnexus supports regional deployment options for genomics apps. This skill helps you define app metadata, manage software requirements, and configure detailed system requirements for regional deployment.

How do I configure app dependencies for a variant calling pipeline on DNAnexus?▼

To configure app dependencies for a variant calling pipeline on DNAnexus, use this skill to define app metadata and manage software requirements. It supports detailed configuration of app dependencies and system requirements.

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