borzoi SKILL.md skillA
borzoi from aipoch/open-science is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add aipoch/open-science/borzoi@git:20260907.1f786cfPins git:20260907.1f786cf in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- aipoch/open-science
- Path
resources/skills/borzoi/SKILL.md- Versions recorded
- 3
- Latest version
- git:20260907.1f786cf, committed Sep 7, 2026
- First version recorded
- Jul 14, 2026
- Size
- 3,947 bytes
- Repository stars
- 5,279
- License
- Apache-2.0
Predict genome-wide functional tracks (RNA-seq, CAGE, DNase, ChIP) from DNA sequence with Borzoi. Use this skill when: (1) Scoring the regulatory effect of a variant on expression/accessibility, (2) Generating predicted coverage tracks for a locus, (3) Prioritising non-coding variants by predicted track delta.
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
# Borzoi — DNA → Functional Track Prediction
## Prerequisites
| Requirement | Minimum | Recommended |
| ----------- | ------- | ----------- |
| Python | 3.10+ | 3.11 |
| CUDA | 12.1+ | 12.4+ |
| GPU VRAM | 16 GB | 24 GB+ |
## How to run
```python
from borzoi_pytorch import Borzoi
model = Borzoi.from_pretrained("johahi/borzoi-replicate-0").cuda().eval()
# input: (batch, 4, 524288) one-hot DNA → output: (batch, tracks, 6144) bins
```
Borzoi consumes ~524 kb one-hot windows and emits binned predictions across
7,611 human tracks (the separate 2,608-track mouse head is off by default;
enable via `enable_mouse_head=True` and select with
`forward(..., is_human=False)`). For variant scoring, run ref/alt windows
centred on the variant and compare per-track output.
## Output format
`(B, T, L)` tensor — `T` tracks × `L` 32-bp bins. Track metadata (assay,
biosample) is in `borzoi_pytorch.pytorch_borzoi_model.TRACKS_DF` (or `model.tracks_df` when using the `AnnotatedBorzoi` subclass) — the base `Borzoi` model has no `targets` attribute.
## Remote compute
Needs ≥24 GB VRAM and either pre-cached HF weights or egress to
…Read the whole file at its exact version.
How to install
mdr add aipoch/open-science/borzoi@sha256:865e8a8c58420823The line at the top of this page pins the label git:20260907.1f786cf, 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_wjlttaj6j6oaenh4)
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Versions
The registry has recorded 3 versions of this file, between Jul 14, 2026 and Sep 7, 2026, about one every 28 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260907.1f786cf latest | 2026-09-07 | 1f786cf | 3,947 B | A | view · diff |
| git:20260811.e7618cb | 2026-08-11 | e7618cb | 3,961 B | A | view · diff |
| git:20260714.a2a3282 | 2026-07-14 | a2a3282 | 3,916 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 (3947 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
aipoch/open-science · 5,279 stars · license Apache-2.0 · pushed 2026-10-19 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_wjlttaj6j6oaenh4 GET https://markdownregistry.com/api/v1/resolve?ref=aipoch/open-science/borzoi GET https://markdownregistry.com/api/v1/blob/865e8a8c58420823bfb2dd4d25f09d7fe674dfe6ede2ab7acc91a8df3a2ca457
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.
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