skills.rest
galeep
galeepCOMMUNITY
Explore all skills by this author →
WebsiteGitHub

dnanexus-integration

Develop and execute genomics pipelines on the DNAnexus platform using dxpy.

Updated May 17, 2026
Search Tags:#workflow#bioinformatics#genomics#dnanexus#dna
One-click install
npx skills add https://github.com/galeep/plugin-place --skill dnanexus-integration-galeep
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: dnanexus-integration
Source: https://github.com/galeep/plugin-place/tree/main/plugins/sci-lab-automation/skills/dnanexus-integration
Command: npx skills add https://github.com/galeep/plugin-place --skill dnanexus-integration-galeep

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires dxpy, and includes scripts (resource) and references (resource) and assets (resource) components.

What problem does it solve?

This Skill simplifies the development and execution of genomics pipelines on the DNAnexus platform, reducing the complexity of building and managing genomic workflows.

Core Features & Use Cases

  • App Development: Build and deploy apps/applets for genomic analysis.
  • Data Operations: Upload, download, search, and organize genomic data.
  • Job Execution: Run analyses, monitor execution, and orchestrate workflows.
  • Python SDK: Access the DNAnexus platform through Python for automation.
  • Use Case: If you need to analyze genomic data and automate the entire process, including building an applet for sequence analysis, running jobs, and managing data, this Skill can help you achieve that.

Quick Start

Install the dxpy package with 'pip install dxpy'. Log in to DNAnexus with 'dx login'. Upload your genomic data with 'dx upload local_file.txt'. Run a job with 'dx run applet-xxxx'.

Frequently Asked Questions about dnanexus-integration

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

FAQPage Schema
How do I build and execute genomics pipelines on the DNAnexus platform?▼

To build and execute genomics pipelines on the DNAnexus platform, you develop applets and apps, manage data operations, and run jobs using the dxpy Python SDK for automation and orchestration.

What do I need to automate genomic workflows using Python?▼

Automating genomic workflows requires installing the dxpy Python library, logging into DNAnexus, uploading genomic data, and running analysis jobs via Python SDK scripts to streamline execution.

Can I manage genomic data operations like uploading and searching with dxpy?▼

Yes, you can manage genomic data operations like uploading, downloading, searching, and organizing data files directly through dxpy commands and Python SDK integration on the DNAnexus platform.

What is the best way to orchestrate sequence analysis jobs in a genomics workflow?▼

Orchestrating sequence analysis jobs in a genomics workflow is best handled by building a sequence analysis applet and running jobs with dx run commands, monitoring execution through the DNAnexus environment.

Does DNAnexus support Python SDK integration for bioinformatics app development?▼

Yes, DNAnexus supports Python SDK integration for bioinformatics app development by utilizing the dxpy library to access platform features, build applets, and automate genomic data analysis pipelines.

Why use dxpy for bioinformatics pipeline development instead of other tools?▼

Using dxpy for bioinformatics pipeline development provides direct Python access to the DNAnexus platform, simplifying applet creation, job execution, and genomic data management within a single workflow.

Related Skills

Explore More Software Engineering Skills→
RamanEbrahimiRamanEbrahimi
3

dnanexus-integration

Connect to DNAnexus for genomic data management and pipeline execution.

Community
Advanced
cultivariumcultivarium
1

ncbi-datasets

Retrieve genomic, gene, and taxonomy data from NCBI Datasets.

Official
Intermediate
Imad-OuteImad-Oute

pysam

Manage and analyze BAM, CRAM, VCF, BCF, FASTA, and FASTQ genomic files.

Community
Intermediate
yf8578yf8578
1

dnanexus-integration

Manage genomics workflows on the DNAnexus cloud platform via the dxpy SDK.

Community
Advanced