bids

bids is a skill for Claude Code, Codex from dralkh/iktinah. It costs 80 tokens per session (8,315 once invoked), scanned A, a copy of bids, MIT.

A standard for organizing and describing neuroscience and biomedical datasets, including MRI, EEG, behavioral, and microscopy data. BIDS defines file names, folder structure, and metadata so both people and software can understand a dataset.

In plain words
What is it for?
Use it to organize datasets, check whether they follow the BIDS standard, convert DICOM files, query dataset layouts, and manage metadata sidecars.
Why use it?
It makes research data more consistent, easier to validate, and simpler to share or process with compatible tools.

Skill for Claude CodeCodex

Written for no agent in particular: nothing here depends on one.

Good fit Use it to organize datasets, check whether they follow the BIDS standard, convert DICOM files, query dataset layouts, and manage metadata sidecars.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/dralkh/iktinah/bids
Install

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.

Any agent
npx skills add dralkh/iktinah --skill bids
Clone the repo
git clone --depth 1 https://github.com/dralkh/iktinah

Made for: Claude Code, Codex.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

agentmods badge for bids

README.md
[![agentmods](https://agentmods.dev/badge/skills/dralkh/iktinah/bids/github.svg)](https://agentmods.dev/skills/dralkh/iktinah/bids)
Your own site
<a href="https://agentmods.dev/skills/dralkh/iktinah/bids"><img src="https://agentmods.dev/badge/skills/dralkh/iktinah/bids/github.svg" alt="Measured on agentmods" height="20"></a>

Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.

agentmods 80×15 button for bids

Your own site · 80×15
<a href="https://agentmods.dev/skills/dralkh/iktinah/bids"><img src="https://agentmods.dev/badge/skills/dralkh/iktinah/bids.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 80 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 8,315 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe. Third-party audits
  • NVIDIA SkillSpector warn 7 Sept 2026
SkillSpector: 4 findings, up to medium

These are SkillSpector’s own severities. On a checked sample its high-severity flags on skills were ~96% false positives — a documented command, a public API, a “never do X” rule — so we show them as a caution to read, not a verdict. Why →

  • medium MCP Rug Pull · line 586
    Docker image references without a specific tag (:latest is implicit) or digest (@sha256:...) can be silently replaced by a malicious image.
    Fix: Pin the image: image:tag or image@sha256:abc123
  • medium MCP Rug Pull · line 591
    Docker image references without a specific tag (:latest is implicit) or digest (@sha256:...) can be silently replaced by a malicious image.
    Fix: Pin the image: image:tag or image@sha256:abc123
  • medium MCP Rug Pull · line 595
    Docker image references without a specific tag (:latest is implicit) or digest (@sha256:...) can be silently replaced by a malicious image.
    Fix: Pin the image: image:tag or image@sha256:abc123
  • medium MCP Rug Pull · line 599
    Docker image references without a specific tag (:latest is implicit) or digest (@sha256:...) can be silently replaced by a malicious image.
    Fix: Pin the image: image:tag or image@sha256:abc123
How audits are shown
Origin 100% copy Near-identical to another mod in the catalogue.
Token cost

What 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.

ModelPer sessionOnce invoked
Fable 5.1 $0.00080 $0.08315
Opus 5.5 $0.00032 $0.03326
Sonnet 5.5 $0.00016 $0.01663
Haiku 4.5 $0.00008 $0.00831

Measured 1mo ago against content hash 7c83b0ce6356, method: parsed. Prices are Anthropic first-party input rates as of 2026-10-07, from the pricing page.

Security

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 1mo ago.

The scan reads SKILL.md. This mod also ships 1 executable file (scripts/update_schema.py), listed below but not scanned — reading those needs a real analyzer, not pattern matching.

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.

Origin

This is a copy

100% identical to bids — 0 lines differ, which has more behind it and is treated as the original. This page carries a canonical link to it rather than competing with it.

skills/bids/SKILL.md · 756 lines

How it starts

The opening of the file, as written. The whole thing — 756 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.json for a new dataset
  • Working with BIDS entities (subject, session, task, acquisition, run, etc.)
  • Configuring .bidsignore to exclude files from validation
  • Preparing data for upload to OpenNeuro, DANDI, or other BIDS-aware repositories

Read the full file on GitHub · 756 lines

Files

What ships with it

6 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.

Changes

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.

  1. 1mo ago First seen · 756 lines · 80 tokens per session scan A 7c83b0ce6356

Subscribe to this mod's changes

bids is a skill published in the GitHub repository dralkh/iktinah (77 stars, last pushed 3mo ago), licensed MIT. It adds 80 tokens to every session and 8,315 once invoked, about $0.0003 per session on Opus 5.5. A static security scan graded it A with 0 findings. It is 100% identical to bids, differing in 0 lines, and is treated as a copy.

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