Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx agentmods add skills/k-dense-ai/scientific-agent-skills/bidsnpx skills add K-Dense-AI/scientific-agent-skills --skill bidsgit clone --depth 1 https://github.com/K-Dense-AI/scientific-agent-skillsWhat it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5 | $0.00080 | $0.03674 |
| Opus 5 | $0.00040 | $0.01837 |
| Sonnet 5 | $0.00016 | $0.00735 |
| Haiku 4.5 | $0.00008 | $0.00367 |
Grade A, and why
bids scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured yesterday.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
How it starts
The opening of the file, as written. The whole thing — 238 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Brain Imaging Data Structure (BIDS)
Overview
The Brain Imaging Data Structure (BIDS) is a community standard for organizing and describing neuroscience and biomedical research datasets. It defines a consistent file naming convention, directory hierarchy, and metadata schema so that datasets are immediately understandable by humans and software tools alike. BIDS is governed by the BIDS Specification (currently v1.11.x) and is maintained by the community via the BIDS-Standard GitHub organization.
While BIDS originated for MRI, it has grown well beyond neuroimaging. The specification now covers 11 modalities spanning imaging, electrophysiology, and behavioral data:
- Imaging: MRI (structural, functional, diffusion, fieldmaps, perfusion/ASL), PET, microscopy
- Electrophysiology: EEG, MEG, iEEG (intracranial EEG), EMG
- Other: NIRS (near-infrared spectroscopy), motion capture, behavioral data (without imaging), MR spectroscopy
Active BEPs are extending BIDS further — notably BEP032 (microelectrode electrophysiology) will add support for extracellular recordings including Neuropixels probes, bringing BIDS to a prevalent methodology in animal neuroscience research (see also the neuropixels-analysis skill).
Adoption is required or strongly encouraged by major data repositories (OpenNeuro, DANDI), leading journals (NeuroImage, Human Brain Mapping, Scientific Data), and funding agencies (NIH, ERC).
The Python ecosystem for BIDS centers on PyBIDS (pybids) for querying and indexing BIDS datasets, and the bids-validator (Deno-based, available as PyPI package bids-validator-deno or via Deno directly) for compliance checking. Conversion from DICOM is typically done with HeuDiConv, dcm2bids, or BIDScoin.
When to Use This Skill
Apply this skill when:
- Organizing raw neuroscience data (imaging, electrophysiology, behavioral) into BIDS-compliant directory structures
- Querying an existing BIDS dataset to find specific files by subject, session, task, run, or modality
- Validating a dataset against the BIDS specification before sharing or submission
- Converting DICOM data from scanners into BIDS format
- Writing or editing JSON sidecar metadata files
- Creating BIDS-compliant derivatives (preprocessed data, analysis outputs)
- Setting up a
dataset_description.jsonfor a new dataset - Working with BIDS entities (subject, session, task, acquisition, run, etc.)
- Configuring
.bidsignoreto exclude files from validation - Preparing data for upload to OpenNeuro, DANDI, or other BIDS-aware repositories
What ships with it
7 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- yesterday First seen · 238 lines · 80 tokens per session scan A b7fcb72c1c15
bids is a skill published in the GitHub repository K-Dense-AI/scientific-agent-skills (40,390 stars, last pushed yesterday), licensed MIT. It adds 80 tokens to every session and 3,674 once invoked, about $0.0004 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.
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