bio-prefect-dask-nextflow SKILL.md skillA
bio-prefect-dask-nextflow from fmschulz/omics-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add fmschulz/omics-skills/bio-prefect-dask-nextflow@git:20261001.bf5afd6Pins git:20261001.bf5afd6 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- fmschulz/omics-skills
- Path
skills/bio-prefect-dask-nextflow/SKILL.md- Versions recorded
- 6
- Latest version
- git:20261001.bf5afd6, committed Oct 1, 2026
- First version recorded
- Feb 2, 2026
- Size
- 3,993 bytes
- Repository stars
- 11
- License
- MIT
Choose and scaffold Prefect+Dask or Nextflow pipelines. Use when designing a local, distributed, or Slurm-backed bioinformatics workflow.
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
# Bio Prefect + Dask + Nextflow Choose a workflow engine for a local, distributed, or HPC bioinformatics pipeline and scaffold it. Supplementary docs last verified: 2026-10-01 against Prefect 3.8.7, prefect-dask 0.3.7 (maintained in the Prefect repository; install with `prefect[dask]`), Dask/distributed 2026.8.0, and Nextflow v26.04.6. ## Instructions 1. Collect requirements: scheduler, container policy, data location, scale, and whether steps are CLI tools or Python functions. 2. Choose the engine with [decision-matrix.md](decision-matrix.md): Nextflow for file-based CLI tools on a scheduler, Prefect+Dask for Python-heavy or dynamic work, or a hybrid with Prefect as the control plane and Nextflow as the compute plane. 3. Generate a runnable scaffold with a clear data layout, per-step resources, and explicit thread counts (`task.cpus` in Nextflow, `threads_per_worker` in Dask). 4. Pin the software: pixi for tool stacks or Apptainer images on HPC, uv for Python (`uv add "prefect[dask]"`). Nextflow v26.04+ parses scripts and configs with the strict syntax by default; write code that passes `nextflow lint`. …
Read the whole file at its exact version.
How to install
mdr add fmschulz/omics-skills/bio-prefect-dask-nextflow@sha256:04b1a471e15b8f50The line at the top of this page pins the label git:20261001.bf5afd6, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_cjbpdu3kruqibnkb)
5 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 6 versions of this file, between Feb 2, 2026 and Oct 1, 2026, about one every 48 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20261001.bf5afd6 latest | 2026-10-01 | bf5afd6 | 3,993 B | A | view · diff |
| git:20260712.3675171 | 2026-07-12 | 3675171 | 2,290 B | A | view · diff |
| git:20260711.5ae6f6f | 2026-07-11 | 5ae6f6f | 1,910 B | A | view · diff |
| git:20260531.5dbd989 | 2026-05-31 | 5dbd989 | 1,885 B | A | view · diff |
| git:20260206.ca21f07 | 2026-02-06 | ca21f07 | 1,669 B | A | view · diff |
| git:20260202.b63f50a | 2026-02-02 | b63f50a | 4,393 B | A | view |
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (3993 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
fmschulz/omics-skills · 11 stars · license MIT · pushed 2026-10-02 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_cjbpdu3kruqibnkb GET https://markdownregistry.com/api/v1/resolve?ref=fmschulz/omics-skills/bio-prefect-dask-nextflow GET https://markdownregistry.com/api/v1/blob/04b1a471e15b8f507f52988c8e586da4fb7bf0ee5ac9897a31bd988a4058b649
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.