Neuroscience
Installable Claude components for neural-data analysis, brain imaging, connectomics, electrophysiology, behavioral assays, and computational neuroscience.
10x Genomics Cloud MCP
MCP server · 10x Genomics · GA · verified: degraded · security: caution
Conversational orchestration of 10x Cloud single-cell, immune-profiling, and spatial-transcriptomics analyses.
ABCD Study Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the ABCD Study dataset, including download via NIMH Data Archive, BIDS organization, and multimodal processing of sMRI, fMRI, and dMRI
ABIDE Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the ABIDE (Autism Brain Imaging Data Exchange) dataset, including download, BIDS organization, and processing of sMRI and rs-fMRI data
ADHD-200 Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the ADHD-200 dataset, including download, BIDS organization, and processing of sMRI and rs-fMRI data
ADNI Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for ADNI data (fMRI + T1), including BIDS preparation, fMRIPrep preprocessing, and DK68 ROI pipeline.
AIBL Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the AIBL (Australian Imaging, Biomarkers and Lifestyle) dataset, including data access guidance, BIDS organization, and multimodal processing of sMRI and PET …
AIND Data MCP
MCP server · Allen Institute for Neural Dynamics · Beta · verified: degraded · security: cleared
Official Allen Institute MCP server giving Claude query and NWB-introspection access to AIND’s V2 neuroscience data assets.
AOMIC Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the AOMIC (Amsterdam Open MRI Collection) dataset, including data access, BIDS organization, and multimodal processing of sMRI, rs-fMRI, and task-fMRI
ASL Perfusion MRI (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Process Arterial Spin Labeling (ASL) perfusion MRI data including CBF (cerebral blood flow) quantification, ASL preprocessing (motion correction, partial volume correction, M0 normalization), or …
AnnData (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill teaching the AnnData annotated-data-matrix format used by Scanpy and scvi-tools for single-cell and other observation/feature matrices.
Anthropic PubMed Connector
MCP server · Anthropic · GA · verified: works · security: cleared
Anthropic-managed NCBI literature search via PubMed and PubMed Central.
BCI-MCP
MCP server · enkhbold470 (community) · Alpha · verified: works · security: caution
MCP server streaming live EEG brain-state metrics (focus, calm, attention, band powers) from OpenBCI/Muse/LSL devices — or a hardware-free synthetic mode — into Claude.
BGPT Paper Search (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Search scientific papers and retrieve structured experimental data extracted from full-text studies via the BGPT MCP server.
BIDS (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill for organizing, validating, and querying Brain Imaging Data Structure datasets — MRI, EEG, MEG, iEEG, PET, microscopy, behavioral, and 35 BIDS entities.
BLAST (Bio-MCP)
MCP server · Bio-MCP · GA · verified: works · security: caution
MCP server wrapping NCBI BLAST+ for nucleotide/protein similarity search and custom database creation, run locally over stdio.
BOLD5000 Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the BOLD5000 dataset, including download, BIDS organization, and processing of task-fMRI data with visual image stimuli
BioContextAI Knowledgebase MCP
MCP server · BioContextAI · GA · verified: works · security: cleared
Read-only MCP that unifies 14+ biomedical databases (Antibody Registry, UniProt, STRING, AlphaFold, KEGG, Open Targets) for immune and protein-context queries.
BioMCP
MCP server · GenomOncology · GA · verified: degraded · security: cleared
Unified biomedical lookup across PubMed, ClinicalTrials.gov, MyVariant, and OpenFDA.
BioPython (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Comprehensive molecular biology toolkit.
BioRender Connector
MCP server · BioRender · GA · verified: degraded · security: cleared
Scientific-figure assembly from the 50,000+ BioRender icon and template library.
BioServices (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Unified Python interface to 40+ bioinformatics services.
Biomni (Claude Skill)
Claude Skill · Stanford SNAP Lab · GA · verified: works · security: caution
General-purpose biomedical AI agent that plans and runs multi-step research workflows across genomics, drug discovery, and clinical analysis.
Brain Visualization (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Visualize neuroimaging analysis results, including 3D brain connectivity networks, atlas-based regional activation summaries, or FreeSurfer cortical surface meshes with anatomical colors
BrainGNN (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Run BrainGNN for fMRI phenotype prediction, including graph construction, training, and evaluation.
BrainNetworkTransformer (BNT) (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Run BrainNetworkTransformer for fMRI phenotype prediction, including data loading, training, and evaluation.
Brian2 (Claude Skill)
Claude Skill · NeuroForge · GA · verified: works · security: caution
Build spiking neural network simulations in Brian2 — equation-based neuron models, synaptic plasticity, monitors, and multicompartment morphology.
COBRE Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the COBRE dataset, including download, BIDS organization, and processing of sMRI and rs-fMRI data for schizophrenia research
CONN Toolbox (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform advanced functional connectivity (ROI-to-ROI, seed-to-voxel, ICA) or effective connectivity (PPI, gPPI, DCM) analysis using the CONN Toolbox
Calcium Imaging Analysis Guide (Claude Skill)
Claude Skill · Awesome Cognitive and Neuroscience Skills · GA · verified: works · security: cleared
Decide motion correction, ROI extraction, neuropil correction, dF/F and spike inference for two-photon and miniscope calcium imaging
Cam-CAN Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the Cam-CAN (Cambridge Centre for Ageing and Neuroscience) dataset, including BIDS validation, multimodal processing of sMRI, rs-fMRI, task-fMRI, and MEG, phenotype …
Com-BrainTF (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Run Com-BrainTF (Community-aware Brain Transformer) for fMRI phenotype prediction.
Composer
Plugin · Scripps AI Enablement · Beta · verified: works · security: cleared
Turns a plain-language scientific problem into a grounded, runnable Claude solution composed from this catalog, reusing recipes and, for open-ended goals, assembling a multi-agent system from those same components.
Consensus Plugin
Claude Code Plugin · Consensus · GA · verified: degraded · security: cleared
Consensus.app MCP plugin bringing AI-powered scientific literature search and evidence synthesis into Claude across all research areas.
DIPY (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Execute concrete DIPY operations: load DWI (NIfTI+bvals+bvecs), optional masking, DTI fitting, compute FA/MD/AD/RD, and extract ROI statistics.
DMT-HAR-MED Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the DMT-HAR-MED dataset (ds006644), including download, BIDS organization, and processing of rs-fMRI data from a psychedelic intervention study
Database Lookup (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Search 78 public scientific, biomedical, materials science, and economic databases via REST APIs.
DeepLabCut (Claude Skill)
Claude Skill · Awesome Cognitive and Neuroscience Skills · GA · verified: works · security: cleared
Run markerless animal pose estimation with DeepLabCut — project setup, keypoint labeling, training, SuperAnimal models, and 2D/3D behavioral tracking
Dictionary Learning (rs-fMRI) (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform resting-state network decomposition using DictLearning.
Diffusion MRI (DWI) (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Preprocess diffusion MRI / DWI data, compute diffusion metrics (FA/MD/AD/RD, etc.), extract ROI-wise diffusion features, or run tractography/connectome-related workflows
Drift-Diffusion Model (Claude Skill)
Claude Skill · Awesome Cognitive and Neuroscience Skills · GA · verified: works · security: cleared
Select, fit and validate drift-diffusion models of two-choice reaction-time data using HDDM, PyDDM, fast-dm or EZ-diffusion
EEG Processing (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Load, preprocess, epoch, filter, or extract features from EEG data (resting-state, task-based, BCI, clinical, motor imagery, emotion, epilepsy, fatigue, etc.)
EMBL-EBI OLS (Claude Skill)
Claude Skill · Google DeepMind · GA · verified: degraded · security: cleared
Resolve and navigate biomedical ontology terms (GO, MONDO, HP, CHEBI, CL, UBERON, EFO, …) across 250+ ontologies via the EMBL-EBI Ontology Lookup Service.
Ensembl MCP Server
MCP server · effieklimi · GA · verified: works · security: cleared
MCP server over the Ensembl REST API for gene/transcript lookup, sequence retrieval, variant consequences, comparative genomics, and assembly lift-over.
FM-APP (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Run FM-APP for phenotype prediction using fMRI ROI features and optional sMRI features.
FSL (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Process neuroimaging data with FSL (FMRIB Software Library), covering structural MRI, functional MRI (fMRI), and diffusion MRI (dMRI/DTI)
FreeSurfer (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Process structural MRI data (T1w, T2w, FLAIR, etc.) with FreeSurfer, especially for cortical/subcortical segmentation, surface reconstruction, parcellation, cortical thickness, volume statistics, or full recon-all pipeline
GLM (Task-fMRI) (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Run a classical General Linear Model (GLM) for task-evoked fMRI activation analysis.
Gene Ontology MCP Server
MCP server · Augmented Nature · Beta · verified: works · security: caution
Query GO terms, annotations, and enrichment inputs from the Gene Ontology; part of the Genes & Ontologies connector in Claude Science.
GlyGen MCP Server
MCP server · GlyGen · Beta · verified: degraded · security: caution
First-party remote MCP server over GlyGen’s integrated glycan, glycoprotein, biomarker, and disease data — protein, site, glycan, biomarker, and disease summaries.
HCP Early-Psychosis Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the HCP Early Psychosis (HCP-EP) dataset, including dataset download, BIDS organization, and multimodal processing of sMRI, fMRI, and dMRI
HCP Pipelines (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform high-quality, HCP-style preprocessing of multimodal MRI data (structural, functional, diffusion) using the official HCP Pipelines
HCP Young-Adult Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the HCP Young Adult (HCP-YA / HCP1200) dataset, including dataset download, BIDS organization, and multimodal processing of sMRI, fMRI, and dMRI
HCP-Aging Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the HCP Aging (HCP-A) dataset, including dataset download, BIDS organization, and multimodal processing of sMRI, fMRI, and dMRI
HCP-Development Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the HCP Development (HCP-D) dataset, including dataset download, BIDS organization, and multimodal processing of sMRI, fMRI, and dMRI
Healthy Brain Network (HBN) Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the Healthy Brain Network (HBN) dataset, including download, BIDS organization, and multimodal processing of sMRI, dMRI, rs-fMRI, task-fMRI, and EEG data
Hierarchical Parcellation (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform brain parcellation using Hierarchical clustering.
Hypothesis Crucible (Claude Plugin)
Claude Plugin · Scripps AI Enablement · GA · verified: works · security: cleared
Agentic cross-corpus hypothesis generation — mines typed knowledge fragments from literature, structured databases, and raw experimental data, bridges them Swanson-style into novel connections, then runs a falsification gauntlet that aggressively rejects non-novel, ungrounded, contradicted, or implausible ideas, emitting only survivors with cited support and a discriminating experimental test.
Hypothesis Generation (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Structured hypothesis formulation from observations.
IBGNN (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Run IBGNN (Interpretable Brain Graph Neural Network) for fMRI phenotype prediction.
ICA Decomposition (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform resting-state network decomposition using ICA.
IXI Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the IXI (Information eXtraction from Images) dataset, including data download, BIDS organization, and multimodal processing of T1w, T2w, and MRA
K-means Parcellation (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform brain parcellation using K-means.
LG-GNN (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Run LG-GNN (Local-to-Global GNN) for fMRI phenotype prediction.
Lesion-Symptom Mapping Guide (Claude Skill)
Claude Skill · Awesome Cognitive and Neuroscience Skills · GA · verified: works · security: cleared
Plan and run lesion-symptom mapping in patient cohorts — VLSM, multivariate SVR-LSM, disconnection and lesion network mapping
Literature Review (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Conduct comprehensive, systematic literature reviews using multiple academic databases (PubMed, arXiv, bioRxiv, Semantic Scholar, etc.).
MEG Processing (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Process MEG (magnetoencephalography) data including source localization, time-frequency analysis, connectivity analysis, sensor-level preprocessing, or MEG-specific feature extraction
MNE-Python (EEG) (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Execute concrete MNE-Python operations for EEG loading, preprocessing, filtering, artifact removal, epoching, frequency-band analysis, or feature extraction.
MS Lesion Segmentation Challenge Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the Longitudinal MS Lesion Segmentation Challenge dataset, including data validation, multimodal processing of T1w, T2w, FLAIR, and PD, lesion segmentation, and …
Motor Neuron Disease (MND) Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the Motor Neuron Disease (MND) dataset from OpenNeuro ds005874, including BIDS validation, multimodal processing of rs-fMRI and task-fMRI, phenotype extraction, and …
MyGene.info MCP (BioThings)
MCP server · longevity-genie · GA · verified: works · security: cleared
Gene annotation and ID conversion across species via MyGene.info/BioThings; the Genes & Ontologies connector in Claude Science.
NIFD (Frontotemporal Dementia) Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the Neuroimaging in Frontotemporal Dementia (NIFD) dataset, including BIDS validation, multimodal processing of sMRI, rs-fMRI, and dMRI, phenotype extraction, and QC integration
NWB MCP Server
MCP server · Ben Hardcastle · Beta · verified: works · security: caution
Query local, S3, or DANDI-hosted NWB neurophysiology files as a virtual SQL database, read-only, without writing Python.
Natural Scenes Dataset (NSD) Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the Natural Scenes Dataset (NSD), including data access, BIDS validation, multimodal processing of task-fMRI and structural MRI, stimulus metadata extraction, and …
NetNeuroTools Guide (Claude Skill)
Claude Skill · Awesome Cognitive and Neuroscience Skills · GA · verified: works · security: cleared
Network neuroscience with netneurotools — consensus connectomes, graph metrics, modularity, spatial autocorrelation-preserving null models and permutation statistics
Neural Population Analysis Guide (Claude Skill)
Claude Skill · Awesome Cognitive and Neuroscience Skills · GA · verified: works · security: cleared
Choose and validate dimensionality-reduction methods for neural population recordings — PCA, GPFA, dPCA and jPCA — with principled dimensionality selection
NeuroFlow
Claude Code Plugin · Stanislav Jiříček · Beta · verified: works · security: caution
End-to-end Claude Code plugin for neuroscience research — ideation, grant writing, experiment design, data analysis, computational brain modeling, and paper drafting.
NeuroHarmonize (ComBat) (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Remove site/scanner/batch effects from neuroimaging features before running downstream models, run mega-analysis across multiple datasets, or evaluate models with leave-site-out / site-stratified protocols
NeuroKit2 (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill for biosignal processing — ECG, EEG, EDA, RSP, PPG, EMG, and EOG analysis including HRV, event-related responses, and multi-modal physiological insights.
NeuroSTORM (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Run the NeuroSTORM multi-model fMRI platform: preprocessing, pretraining (MAE or contrastive), fine-tuning, inference, or benchmarking.
Neuropixels-Analysis (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill for end-to-end Neuropixels analysis — SpikeGLX/Open Ephys/NWB loading, preprocessing, motion correction, and Kilosort4/SpykingCircus2/Mountainsort5 spike sorting.
Neurosift Tools MCP
MCP server · Flatiron Institute · Beta · verified: works · security: caution
MCP server that lets Claude search DANDI/OpenNeuro and introspect NWB neurophysiology files, plus semantic search over PyNWB docs.
NiBabel (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
NeuroClaw needs concrete nibabel operations for neuroimaging files: loading and validating NIfTI images, inspecting shapes and affine matrices, saving derived images, converting voxel coordinates …
Nilearn (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Execute concrete Nilearn operations: ROI/atlas time-series extraction, confounds handling (fMRIPrep), seed-based connectivity maps, ROI-to-ROI connectivity matrices, and optional GLM/decoding utilities.
OASIS Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the OASIS (Open Access Series of Imaging Studies) dataset, including BIDS validation, multimodal processing of sMRI, and phenotype extraction for aging …
Ontology Lookup Service (OLS) MCP Server
MCP server · seandavi · Beta · verified: works · security: caution
Search and resolve terms across hundreds of biomedical ontologies via EMBL-EBI’s OLS; part of the Genes & Ontologies connector in Claude Science.
OpenNeuro MCP
MCP server · Quentin Cody (community) · Beta · verified: broken · security: caution
Community MCP server giving Claude GraphQL access to the OpenNeuro archive of MRI, MEG, EEG, iEEG, and ECoG datasets.
Optogenetics Protocol Designer (Claude Skill)
Claude Skill · Awesome Cognitive and Neuroscience Skills · GA · verified: works · security: cleared
Choose opsins, wavelengths, pulse protocols, fiber specifications and control conditions for optogenetic excitation or inhibition experiments
PET Processing (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Process PET neuroimaging data including spatial normalization to T1w/MNI space, SUVR computation, reference region quantification, partial volume correction, or tracer-specific workflows (PiB amyloid, FDG …
PNC Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the Philadelphia Neurodevelopmental Cohort (PNC) dataset, including BIDS validation, multimodal processing of sMRI, rs-fMRI, task-fMRI, and dMRI, phenotype extraction, and QC integration
PPMI Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the Parkinson’s Progression Markers Initiative (PPMI) dataset, including BIDS validation, multimodal processing of sMRI, rs-fMRI, and dMRI, phenotype extraction, and QC integration
Paper Lookup (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: caution
Search 10 academic paper databases via REST APIs for research papers, preprints, and scholarly articles.
Parameter Recovery Checker (Claude Skill)
Claude Skill · Awesome Cognitive and Neuroscience Skills · GA · verified: works · security: cleared
Run parameter- and model-recovery simulations to check a cognitive model is identifiable before you interpret its fitted parameters
Proto-OKN MCP Server
MCP server · SBL-SDSC (San Diego Supercomputer Center) · Beta · verified: works · security: cleared
Natural-language access to 30+ NSF Proto-OKN scientific knowledge graphs (SPOKE biomedicine, BioBricks chemical safety, more) via SPARQL, schema inspection, and cross-graph bridging.
Pycortex Guide (Claude Skill)
Claude Skill · Awesome Cognitive and Neuroscience Skills · GA · verified: works · security: cleared
Render fMRI data on cortical surfaces with pycortex — 2D flatmaps, interactive 3D WebGL viewers, volume-to-surface mapping and ROI management
QSIPrep (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Run QSIPrep (BIDS App) for diffusion MRI (DWI) preprocessing with best-practice workflows (topup/eddy, denoising/unringing options, susceptibility/motion correction, coregistration/normalization, QC reports) on BIDS datasets.
REST-meta-MDD Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the REST-meta-MDD (Resting-State Meta-Major Depressive Disorder) dataset, including BIDS validation, processing of rs-fMRI, phenotype extraction, and QC integration
Revvity Signals AI Connector
Claude.ai Connector · Revvity Signals Software · GA · verified: degraded · security: cleared
Claude.ai connector giving natural-language access to the Revvity Signals electronic lab notebook and connected R&D data.
Run Models (NeuroClaw) (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Run phenotype-prediction models, browse model cards, map model inputs/outputs, or choose an execution route for fMRI/sMRI based models.
SEED-IV (EEG Emotion) Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the SEED-IV (SJTU Emotion EEG Dataset - 4 emotions) dataset, including EEG validation, preprocessing, feature extraction, and emotion classification
SEED-VIG (EEG Vigilance) Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the SEED-VIG (SJTU Emotion EEG Dataset - Vigilance) dataset, including EEG validation, preprocessing, feature extraction, and vigilance/fatigue detection
SVM Classifier (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform disease classification with SVM.
Scanpy-MCP
MCP server · scmcphub · GA · verified: works · security: caution
MCP server wrapping Scanpy so Claude can run end-to-end single-cell RNA-seq analyses (QC, clustering, DE, plotting) from natural language.
Scholar Gateway Connector (Wiley)
MCP server · Wiley · Beta · verified: works · security: cleared
Wiley remote connector for peer-reviewed scholarly content — 3M+ articles, 300+ Life Sciences journals.
SciTeX Dataset MCP
MCP server · SciTeX · Beta · verified: works · security: caution
MCP server giving Claude a unified search across OpenNeuro, DANDI, PhysioNet, and Zenodo for BIDS/NWB neuroscience datasets.
Scientific Brainstorming (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Creative research ideation and exploration.
Scientific Critical Thinking (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Evaluate scientific claims and evidence quality.
Signal Detection Analysis (Claude Skill)
Claude Skill · Awesome Cognitive and Neuroscience Skills · GA · verified: works · security: cleared
Apply signal detection theory to behavioral data — d-prime, criterion, beta, extreme-value correction and non-parametric alternatives
Signal Detrending (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform neuroimaging signal denoising with classical detrending methods.
SpaceNet Classifier (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform disease classification with SpaceNet.
SpikeInterface (Claude Skill)
Claude Skill · SciAgent · GA · verified: works · security: cleared
Unified Python framework for extracellular electrophysiology.
SpikeLab
Claude Skill · Braingeneers · Beta · verified: works · security: cleared
Agent-skill suite for multi-electrode-array spike-train analysis and spike sorting (Kilosort2/4, RT-Sort), with an optional built-in MCP server.
Structural MRI (sMRI) (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Process structural MRI (sMRI) such as T1w/T2w/FLAIR for brain extraction, bias correction, tissue segmentation (GM/WM/CSF), registration to MNI, cortical/subcortical parcellation, cortical thickness/volumetry (FreeSurfer), HCP-style …
Synapse.org Connector
MCP server · Sage Bionetworks · GA · verified: works · security: cleared
Discovery and metadata retrieval across Synapse-hosted biomedical datasets and consortium projects.
Temporal Filtering (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform neuroimaging signal denoising with classical temporal filtering methods.
ToolUniverse
MCP server · Zitnik Lab (Harvard Medical School) · MIT Lincoln Laboratory · GA · verified: works · security: cleared
Harvard / MIT MCP server bundling 600+ vetted scientific tools — literature, chemistry, omics, clinical trials — for AI-scientist-style hypothesis exploration.
Transdiagnostic Connectome Project (TCP) Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the Transdiagnostic Connectome Project (TCP) dataset, including BIDS validation, multimodal processing of sMRI, rs-fMRI, and dMRI, phenotype extraction, and QC integration
UCLA CNP Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
End-to-end workflow for the UCLA CNP (Consortium for Neuropsychiatric Phenomics) dataset, including BIDS validation, multimodal processing of sMRI, task-fMRI, and dMRI, phenotype extraction, and …
UK Biobank (Brain) Pipeline (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Analyze already available UK Biobank data for brain-related research, including neurological outcomes, cognitive phenotypes, brain MRI derived phenotypes, survival analysis, subgroup analysis, propensity score …
WMH Segmentation (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform automated white matter hyperintensity (WMH) segmentation on structural MRI data using the MARS-WMH nnU-Net model.
allenbrain-mcp
MCP server · maflot (community) · Alpha · verified: degraded · security: caution
Community MCP wrapper exposing Allen Brain Atlas RMA queries, cell-types, mouse connectivity, ontologies, and image/grid downloads to Claude.
arXiv MCP Server
MCP server · blazickjp · GA · verified: works · security: cleared
Search and retrieve arXiv preprints (incl. q-bio) and metadata; part of the Literature Graph connector in Claude Science.
bio-research (Claude Code Plugin)
Claude Code Plugin · Anthropic · GA · verified: degraded · security: cleared
Umbrella plugin bundling 5 analysis skills and ~10 MCP connectors (PubMed, BioRender, ChEMBL, Synapse, Wiley, Open Targets, Benchling, etc.) for preclinical R&D.
dcm2niix (DICOM → NIfTI) (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Convert DICOM files or folders to NIfTI format (.nii or .nii.gz), extract neuroimaging volumes from clinical DICOM series (MRI, CT, PET, etc.), prepare raw …
fMRI Processing (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform fMRI preprocessing, first-level analysis, ROI extraction, functional connectivity, effective connectivity, or atlas-based alignment to MNI152 space using either fMRIPrep, HCP-style pipelines, or CONN Toolbox
fMRIPrep (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Perform standardized preprocessing of functional MRI (fMRI) and anatomical MRI data using fMRIPrep
neuro-mcp
MCP server · AImplifier · Alpha · verified: works · security: caution
54-tool MCP server wrapping MNE-Python EEG/MEG preprocessing, source imaging, a BIDS/EHR record store, and offline interactive plots.
nextflow-development
Claude Skill · Anthropic · GA · verified: works · security: cleared
Runs nf-core rnaseq, sarek, and atacseq pipelines on local FASTQ or GEO/SRA inputs.
nii2dcm (NIfTI → DICOM) (Claude Skill)
Claude Skill · NeuroClaw · GA · verified: works · security: cleared
Convert NIfTI files (.nii or .nii.gz) to DICOM format, create DICOM series from processed neuroimaging results, write segmentation/registration/analysis outputs back to DICOM for PACS …
pyNIBS (Claude Skill)
Claude Skill · NeuroForge · GA · verified: works · security: caution
Analyze non-invasive brain stimulation (TMS/NIBS) experiments in pyNIBS — mesh/ROI I/O, coil-placement optimization, and MEP-to-E-field regression mapping.
scVelo (Claude Skill)
Claude Skill · K-Dense · GA · verified: works · security: cleared
Claude skill for RNA-velocity analysis with scVelo — estimates cell-state transitions from unspliced/spliced mRNA counts, infers trajectories, latent time, and driver genes.
scientific-problem-selection
Claude Skill · Anthropic · GA · verified: works · security: caution
Structured framework for research project ideation, risk assessment, and troubleshooting, based on Fischbach & Walsh (Cell 2024).
scvi-tools
Claude Skill · Anthropic · GA · verified: works · security: cleared
Deep-learning workflows for scVI, scANVI, totalVI, MultiVI, PeakVI, DestVI, and related scvi-tools models for single-cell omics.
single-cell-rna-qc
Claude Skill · Anthropic · GA · verified: works · security: cleared
scverse MAD-based QC for .h5ad and 10x .h5 single-cell RNA-seq inputs.
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