Individual skill
dnanexus-integration
Build and operate reproducible genomics workloads on DNAnexus with the dx CLI, dxpy, apps/applets, native workflows, dxCompiler, and Nextflow. Use for DNAnexus data transfers, dxapp.json development, execution monitoring, workflow import, and project automation.
plugins/KalarisLabs/research-agent-skills/skills/dnanexus-integration/SKILL.md
Source commit d780783eba4ecc7c8b9429f95c9362df95f07c61
What was checked
- Matches the observed repository HEAD
- Yes
- Scanner rules are current
- Yes
- Repository scan complete
- No
- Skill scan complete
- No
- Observed behavior
- Network or broad shell
- Last checked
- Nov 4, 2026
These are observations at the recorded commit, not a guarantee of safety. Review the source before running it.
Install this skill
Choose an agent in your Stack or copy a command below. Commands fetch the pinned commit and copy only this skill directory. Existing destinations are refused. Copying a command does not install anything.
An install command is unavailable: current rules, complete repository and skill scans, an eligible behavior level and a permitted license are required.
Repository context
- Repository stars (not skill ratings)
- 1,532
- Repository last updated
- Nov 6, 2026
- License
- Apache-2.0
Observed agent integration: No specific integration evidence. Standard SKILL.md installation does not imply verified compatibility.
- ai-coding Repository topic
- awesome Repository topic
- awesome-list Repository topic
- codex Repository topic
- codex-plugins Repository topic
- openai Repository topic
- codex-skill Repository topic
- codex-skills Repository topic
- marketplace Repository topic
- codex-marketplace Repository topic
- operations Derived category
- data Derived category
Declared tags are partial or unavailable.
Files and excerpt
File metadata and permitted, redacted excerpts come from the recorded scan. Source links are pinned to that commit.
Browse files
SKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesSKILL.mdcore · 11,227 bytesreferences/app-development.mddoc · 9,631 bytesreferences/authentication.mddoc · 7,685 bytesreferences/configuration.mddoc · 12,213 bytesreferences/data-operations.mddoc · 13,007 bytesreferences/job-execution.mddoc · 12,666 bytesreferences/operations-and-troubleshooting.mddoc · 13,616 bytesreferences/python-sdk.mddoc · 12,157 bytesreferences/sources.mddoc · 10,025 bytesreferences/workflow-languages.mddoc · 8,901 bytesscripts/inspect_dxpy.pyruns · 10,347 bytesscripts/validate_dxapp.pyruns · 26,829 bytes
Read excerpt
# DNAnexus Integration
## Purpose
Use this skill to build, run, and operate DNAnexus workloads without guessing
at platform semantics. It covers:
- `dx` CLI and `dxpy` automation
- Files, records, folders, projects, and metadata
- Apps and applets defined by `dxapp.json`
- Jobs, workflow analyses, retries, monitoring, and cost controls
- Native workflows, WDL/CWL through dxCompiler, and Nextflow imports
The documented baseline was verified on **2026-07-23** against