borzoi SKILL.md skillA
borzoi from pengqianhan/ai-human-research-os is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add pengqianhan/ai-human-research-os/borzoi@git:20260715.38d79bePins git:20260715.38d79be in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- pengqianhan/ai-human-research-os
- Path
research-skills-hub/claude-science-skills/skills/borzoi/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260715.38d79be, committed Jul 15, 2026
- Size
- 3,916 bytes
- Repository stars
- 3
- License
- MIT
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 pengqianhan/ai-human-research-os/borzoi@sha256:138b38790b1a1c6aThe line at the top of this page pins the label git:20260715.38d79be, 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_ifelcrp6dmzyee7g)
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Versions
The registry has recorded 1 version of this file, committed on Jul 15, 2026.
Audit of the latest version
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- pass: Frontmatter declares a description
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- pass: No zero-width or bidi control characters
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- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
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- pass: No curl or wget piped into a shell
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Source
pengqianhan/ai-human-research-os · 3 stars · license MIT · pushed 2026-10-19 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_ifelcrp6dmzyee7g GET https://markdownregistry.com/api/v1/resolve?ref=pengqianhan/ai-human-research-os/borzoi GET https://markdownregistry.com/api/v1/blob/138b38790b1a1c6a2c48a1c9712256f168790a01f5f5f9a4810ca5e0f2c1a62d
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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