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End-to-end research workflow plugin for neuroscience teams — from hypothesis to publication. Supports EEG, iEEG, fMRI, eye tracking, ECG, and other neuroscience modalities.
npx claudepluginhub stanislavjiricek/neuroflow --plugin neuroflowInfinite improvement loop for any research artifact — point it at any file(s), and it runs a worker-evaluator loop indefinitely: one focused change per iteration, keep or revert based on relative comparison, dashboard at localhost:8765. Never stops until interrupted.
Assemble a computational brain model or continue working on one — neuron models, network topology, connectivity, and simulation framework setup.
Run a parameter search or fit a computational brain model to experimental data.
Run a computational brain model simulation — configure run parameters, launch the simulation, and collect outputs.
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Autoresearch loop agent — runs the infinite worker-evaluator improvement loop for any phase. Makes one focused change per iteration via a worker, compares to previous best via an evaluator, keeps or reverts. Never stops until the human interrupts. Inspired by Andrej Karpathy's autoresearch (MIT).
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Literature review specialist. Runs 12 sequential analytical lenses on a set of downloaded papers — from landscape mapping to future research agenda — using the worker-critic loop to ensure rigour. Scoped to the ideation phase.
Hyper-critical manuscript reviewer for the unified paper phase. Applies the full six-area neuroflow:review-neuro methodology to every section draft — as if reviewing for Nature Neuroscience or Neuron. Returns [STATUS: APPROVED] or [STATUS: REJECTED] with specific, actionable feedback. Never produces content.
Specialist manuscript writer for the unified paper phase. Drafts neuroscience manuscript sections from upstream project memory, journal guidelines, and analysis results — operates inside a brutal write→critique loop with the paper-critic agent and revises until approved or the loop is exhausted.
Infinite improvement loop for any research artifact in any phase — worker makes one focused change per iteration, evaluator compares to previous best, keeps or reverts. Loop never stops until the human interrupts it. Inspired by Andrej Karpathy's autoresearch (MIT).
This skill should be used whenever the user mentions BIDS, Brain Imaging Data Structure, BIDS conversion, BIDS validation, BIDS compliance, organizing neuroimaging data, dataset_description.json, participants.tsv, bids-validator, pybids, MNE-BIDS, or asks how to structure EEG/MEG/fMRI/iEEG/PET/DWI data for sharing or preprocessing. Also invoke when the user asks how to name scan files, what sidecar JSON fields are needed, how to set up derivatives/, or how to run fMRIPrep/MRIQC on their dataset. Invoke proactively during /data, /data-preprocess, and /data-analyze phases whenever the dataset structure is relevant to the task at hand.
Remove AI writing signatures from prose. Makes text sound genuinely human-authored — varied rhythm, natural register, no AI tells. Use when drafting, editing, or reviewing any text that needs to read as if a person wrote it.
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Guide for developing and maintaining the neuroflow plugin. Use when adding skills, commands, agents, or hooks to neuroflow, bumping the version, or publishing updates to GitHub.
Modifies files
Hook triggers on file write and edit operations
Requires secrets
Needs API keys or credentials to function
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Neuroscience data standards and experiment design: BIDS conversion/validation, HED annotation, and PsychoPy experiment scaffolding
Synapse research orchestration plugin for Claude Code. Connects AI agents to Synapse for experiment execution, literature search, progress reporting, and autonomous research loops.
Computational-science methodology for Claude Code: research framing, pre-registration, reproducible analysis, anomaly investigation, and red-team review
11 research-hub skills: literature triage matrix, context compression, project orientation, design dialog, multi-AI routing, NotebookLM brief verification, paper-memory builder, paper summarizer, Zotero curator, the gap-to-topic decision dossier, and the research-hub orchestrator. Auto-discovered from skills/<name>/SKILL.md.
Academic research agents — hypothesis generation, experiment design, paper drafting, peer review simulation, and more.
Scientific research agent extension - turns research goals into reproducible Jupyter notebooks with Python REPL, data analysis, and ML workflows
Uses power tools
Uses Bash, Write, or Edit tools
Uses power tools
Uses Bash, Write, or Edit tools
Share bugs, ideas, or general feedback.
The agentic operating system for neuroscience research.
What's new · Why · Commands · Skills · Agents · Hooks · Project memory · Install · Contribute
neuroflow:bids skill — comprehensive Brain Imaging Data Structure reference: full folder hierarchy for all modalities (MRI/EEG/MEG/iEEG/PET/DWI/NIRS/motion), entity ordering rules, JSON sidecar fields, derivatives structure, and tool guides for bids-validator, pybids, MNE-BIDS, fMRIPrep, and dcm2niix/HeuDiConv conversion pipelinesphase-data, phase-data-preprocess, and phase-data-analyze now reference the BIDS skill; invoked automatically when structure, validation, or loading is relevantmind.js updated — sk-bids node added to the pipeline cluster, linked to c-data~/.neuroflow/ structure — flowie and hive caches move from per-project .neuroflow/flowie/ to a single global ~/.neuroflow/flowie/ (one clone per user); hive caches at ~/.neuroflow/hives/{org-repo}/; integrations.json lives in flowie globally; team.md and linked_flows.md removed from project structure; collaborators now in project_config.mdneuroflow-core pulls ~/.neuroflow/flowie/ and all hive caches at the start of every command session; always start with fresh knowledge~/.neuroflow/flowie/wiki/, ~/.neuroflow/hives/*/wiki/, .neuroflow/wiki/); answers cite source wiki by levelneuroflow-core detects decisions/hypotheses/insights at end of every command and offers wiki ingest with smart level routing; per-command wiki nudges removed from /data-analyze, /paper, /notesmind.js updated, version badge fixedflowie_profiles list — replaces the redundant flowie_project + hive_member scalar fields in project_config.md with a single extensible flowie_profiles: list; each entry has handle and repo; first entry = project owner, additional entries added when collaborators run /flowie --link; backward-compatible (one entry = old behavior)/setup) — new Step 6 saves your GitHub username to ~/.neuroflow/user.yaml; /neuroflow Step 1b reads it to pre-fill the flowie handle so you never have to enter it again on a new projectflowie_project: and hive_member: scalar fields and suggests running /neuroflow to migrate/meeting — first-class meeting command: schedule meetings from recurring templates, prepare agendas with active task context, send Google Calendar invites, and auto-create tasks from action items at project/flowie/hive level/flowie --tasks --level) — tasks now exist at three levels: personal flowie (private), project (git-tracked, shared with collaborators), and hive (team-wide); kanban rendering mandatory on all displays.neuroflow/flowie/ gitignored — flowie is personal and excluded from shared project repos; each collaborator keeps their own private flowie; collaborator join flow documented in phase-hive/flowie --wiki-*) — Karpathy-style LLM-maintained knowledge base inside your flowie repo; ingest sources, query your accumulated knowledge, lint for orphan/stale pages, and build a compounding synthesis; every page is tagged to flowie projects; integrates with /notes, /ideation, /data-analyze, and /paper via closing promptsneuroflow:wiki skill — full wiki behavior: page types and frontmatter schema, ingest/query/lint/add/schema workflows, project tagging (always prompted), ideas.md sync, profile.md evolution, fails integration for method pages, and sentinel health checks