Agent Workflow Claude Skills
4 121 agent workflow skills from 665 authors. They configure the agents themselves: memory, prompts, context and other skills. Half of them fit into 1 845 tokens or less — that is what one costs your context window when the agent loads it. 778 ship runnable scripts rather than instructions alone. 5 of them cannot work without an MCP server, most often task. We also found 541 copies of these same skills sitting in other people's repositories — counted once here, not 541 times.
4 121 unique 665 authors 2 767 updated this month 506 from vendors
Workflow for orchestrating reproducible omics pipelines with workflow engines and clear execution provenance.
Use when work has genuinely independent streams or distinct builder, evaluator, domain, and integration roles that require bounded multi-agent command.
Use when an agent workflow needs production-like runtime controls for context, tools, permissions, observability, scheduling, evaluation, recovery, or maintenance.
Use when a completed work session should yield durable concepts, corrections, decisions, reusable patterns, and a traceable next action.
Query visual scientific figure references, show candidates for human preference selection, export selected reference bundles, and guide plotting agents from human-selected visual examples to code action.
End-to-end metabolomics workflow from raw MS data to pathway analysis. Orchestrates XCMS preprocessing, annotation, normalization, statistical analysis, and pathway mapping. Use when processing LC-MS metabolomics data.
End-to-end outbreak investigation from pathogen isolates to transmission networks. Orchestrates MLST typing, AMR surveillance, phylodynamic dating, and transmission inference with TransPhylo. Use when investigating disease outbreaks or tracking pathogen transmission chains.
Create new skills, modify and improve existing skills, and measure skill performance. Use when users want to create a skill from scratch, edit, or optimize an existing skill, run evals to test a skill, benchmark skill performance with variance analysis, or optimize a skill's description for better triggering accuracy.
Search scientific papers via the BGPT MCP server and retrieve structured experimental data — methods, results, conclusions, quality scores, and 25+ metadata fields per paper.
Meta-agent that routes bioinformatics requests to specialised sub-skills. Handles file type detection, analysis planning, report generation, and reproducibility export.
Wrapper skill for running nf-core/rnaseq bulk RNA-seq preprocessing from FASTQ or BAM inputs with strict preflight, reproducibility outputs, and downstream handoff to ClawBio bulk RNA-seq DE skills.
Wrapper skill for running nf-core/scrnaseq upstream single-cell RNA-seq preprocessing from FASTQ with strict preflight, reproducibility outputs, and downstream handoff to ClawBio scRNA skills.
Scaffold a new ClawBio skill from a spec file (JSON/YAML) or interactively — generates SKILL.md, Python skeleton, tests, and updates catalog.json
Maps natural language voice commands to concrete LabClaw skill invocations. Parses ASR output, identifies intent, selects target skill, fills parameters from context, and provides prompt templates — enabling hands-free, voice-driven anywhere-lab experiences where researchers control analysis, guidance, and data export by speaking.
Use this skill whenever the user wants an 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. Triggers include: 'ABCD Study', 'ABCD data', 'process ABCD', 'ABCD fMRI', 'ABCD sMRI', 'ABCD diffusion', or any request to run the ABCD multimodal pipeline. This is the NeuroClaw dataset-orchestration layer for ABCD.
Use this skill whenever the user wants an 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. Triggers include: 'ABIDE', 'ABIDE data', 'process ABIDE', 'ABIDE fMRI', 'ABIDE sMRI', 'autism imaging', or any request to run the ABIDE pipeline. This is the NeuroClaw dataset-orchestration layer for ABIDE.
Use this skill whenever the user wants an end-to-end workflow for the ADHD-200 dataset, including download, BIDS organization, and processing of sMRI and rs-fMRI data. Triggers include: 'ADHD-200', 'ADHD200', 'process ADHD data', 'ADHD fMRI', or any request to run the ADHD-200 pipeline. This is the NeuroClaw dataset-orchestration layer for ADHD-200.
Use this skill whenever the user wants an end-to-end workflow for ADNI data (fMRI + T1), including BIDS preparation, fMRIPrep preprocessing, and DK68 ROI pipeline. This is the NeuroClaw dataset-orchestration layer for ADNI.
Use this skill whenever the user wants an 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 (PiB, FDG, tau). Triggers include: 'AIBL', 'AIBL data', 'process AIBL', 'AIBL PET', 'AIBL MRI', or any request to run the AIBL multimodal pipeline. This is the NeuroClaw dataset-orchestration layer for AIBL.
Use this skill whenever the user wants an 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. Triggers include: 'AOMIC', 'AOMIC data', 'process AOMIC', 'AOMIC fMRI', 'AOMIC resting state', or any request to run the AOMIC multimodal pipeline. This is the NeuroClaw dataset-orchestration layer for AOMIC.
Use this skill whenever the user wants to process Arterial Spin Labeling (ASL) perfusion MRI data including CBF (cerebral blood flow) quantification, ASL preprocessing (motion correction, partial volume correction, M0 normalization), or ASL-based brain perfusion analysis. Triggers include: 'ASL', 'ASL processing', 'CBF', 'cerebral blood flow', 'perfusion MRI', 'arterial spin labeling', 'pCASL', 'CASL', 'PASL', or any request involving ASL perfusion data.
Use this skill whenever the user wants an end-to-end workflow for the BOLD5000 dataset, including download, BIDS organization, and processing of task-fMRI data with visual image stimuli. Triggers include: 'BOLD5000', 'BOLD 5000', 'process BOLD5000', 'visual fMRI', or any request to run the BOLD5000 pipeline. This is the NeuroClaw dataset-orchestration layer for BOLD5000.
Use this skill whenever the user wants an 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 extraction, and QC integration. Triggers include: 'Cam-CAN', 'CamCAN', 'process Cam-CAN data', 'Cam-CAN MEG', 'Cam-CAN fMRI', or any request to run the Cam-CAN multimodal pipeline.
Use this skill whenever any NeuroClaw skill, sub-agent, or model needs to execute shell commands safely (e.g. source environment scripts, run recon-all, git operations, conda commands, ls, cat logs, etc.). Triggers include: 'run shell', 'execute command', 'shell command', 'tmux claw', 'run in claw session', 'safe shell execution', or any request that requires running terminal commands. This skill is the mandatory gatekeeper for all shell execution in NeuroClaw: it ALWAYS routes commands through the dedicated tmux session `claw`, never touches other sessions, and returns captured output to the calling agent.
Use this skill whenever the user wants an end-to-end workflow for the COBRE dataset, including download, BIDS organization, and processing of sMRI and rs-fMRI data for schizophrenia research. Triggers include: 'COBRE', 'process COBRE', 'COBRE schizophrenia', 'COBRE fMRI', or any request to run the COBRE pipeline. This is the NeuroClaw dataset-orchestration layer for COBRE.
Use this skill whenever the user wants an 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. Triggers include: 'DMT-HAR-MED', 'DMT HAR MED', 'ds006644', 'process DMT data', 'psychedelic fMRI', or any request to run the DMT-HAR-MED pipeline. This is the NeuroClaw dataset-orchestration layer for DMT-HAR-MED.
Use this skill whenever the user wants to preprocess diffusion MRI / DWI data, compute diffusion metrics (FA/MD/AD/RD, etc.), extract ROI-wise diffusion features, or run tractography/connectome-related workflows. Triggers include: 'DWI', 'DTI', 'diffusion MRI', 'FA', 'MD', 'AD', 'RD', 'eddy', 'topup', 'QSIPrep', 'tractography', 'connectome', 'TBSS', 'white matter microstructure'. This is the NeuroClaw modality-layer interface: it plans WHAT to do and delegates execution to tool skills.
Use this skill whenever the user wants to load, preprocess, epoch, filter, or extract features from EEG data (resting-state, task-based, BCI, clinical, motor imagery, emotion, epilepsy, fatigue, etc.). Triggers include: 'eeg', 'EEG preprocessing', 'EEG feature extraction', 'band power', 'downsample to frequency bands', 'motor imagery BCI', 'emotion EEG', 'epilepsy detection', or any request involving .set/.edf/.bdf/.fif/.bids files.
Use this skill whenever the user wants to 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. Triggers include: 'fmri', 'fMRI analysis', 'functional connectivity', 'effective connectivity', 'ROI extraction', 'seed-based correlation', 'PPI', 'DCM', 'atlas alignment', 'MNI152', 'HCP pipeline', 'CONN toolbox', or any request involving BOLD data.
Use this skill whenever the user wants an 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. Triggers include: 'HBN', 'Healthy Brain Network', 'process HBN', 'HBN fMRI', 'HBN EEG', or any request to run the HBN multimodal pipeline. This is the NeuroClaw dataset-orchestration layer for HBN.
Use this skill whenever the user wants an end-to-end workflow for the HCP Aging (HCP-A) dataset, including dataset download, BIDS organization, and multimodal processing of sMRI, fMRI, and dMRI. Triggers include: 'HCP Aging', 'HCP-A', 'process HCP Aging data', 'HCP Aging sMRI fMRI', or any request to run the HCP-A multimodal pipeline.
Use this skill whenever the user wants an end-to-end workflow for the HCP Development (HCP-D) dataset, including dataset download, BIDS organization, and multimodal processing of sMRI, fMRI, and dMRI. Triggers include: 'HCP Development', 'HCP-D', 'process HCP Development data', 'HCP Development sMRI fMRI', or any request to run the HCP-D multimodal pipeline.
Use this skill whenever the user wants an 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. Triggers include: 'HCP Early Psychosis', 'HCP-EP', 'process HCP Early Psychosis data', 'HCP EP sMRI fMRI', or any request to run the HCP-EP multimodal pipeline.
Use this skill whenever the user wants an 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. Triggers include: 'HCP Young Adult', 'HCP-YA', 'HCP1200', 'process HCP data', 'HCP sMRI fMRI DTI', or any request to run the HCP-YA multimodal pipeline.
Use this skill whenever the user wants an 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. Triggers include: 'IXI', 'IXI dataset', 'process IXI data', 'IXI MRI', or any request to run the IXI multimodal pipeline.
Use this skill whenever the user wants to process MEG (magnetoencephalography) data including source localization, time-frequency analysis, connectivity analysis, sensor-level preprocessing, or MEG-specific feature extraction. Triggers include: 'MEG', 'MEG processing', 'MEG source localization', 'MEG connectivity', 'magnetoencephalography', 'beamformer', 'time-frequency', 'MEG preprocessing', or any request involving MEG data files (.fif, .con, .ds).
Use this skill whenever the user wants an 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 QC integration. Triggers include: 'MND', 'Motor Neuron Disease', 'ALS', 'Amyotrophic Lateral Sclerosis', 'process MND data', 'MND fMRI', or any request to run the MND multimodal pipeline.
Use this skill whenever the user wants an 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 QC integration. Triggers include: 'MS Lesion Challenge', 'MS Lesion', 'ISBI MS', 'longitudinal MS', 'multiple sclerosis lesion', or any request to run the MS lesion segmentation pipeline.
Use this skill whenever NeuroClaw needs concrete nibabel operations for neuroimaging files: loading and validating NIfTI images, inspecting shapes and affine matrices, saving derived images, converting voxel coordinates to MNI/world coordinates, or reading FreeSurfer geometry and annotation files. Triggers include: 'nibabel', 'inspect NIfTI', 'read affine', 'save nifti', 'voxel to MNI', 'atlas coordinates', 'read FreeSurfer surface', 'read annot', or any request focused on low-level neuroimaging I/O rather than full preprocessing.
Use this skill whenever the user wants an 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. Triggers include: 'NIFD', 'frontotemporal dementia', 'FTD', 'bvFTD', 'PPA', 'process NIFD data', or any request to run the NIFD multimodal pipeline.
Use this skill whenever the user wants an 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 QC integration. Triggers include: 'NSD', 'Natural Scenes Dataset', 'process NSD data', 'NSD fMRI', 'visual neuroscience', or any request to run the NSD multimodal pipeline.
Use this skill whenever the user wants an 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 and Alzheimer's disease research. Triggers include: 'OASIS', 'OASIS-1', 'OASIS-2', 'OASIS-3', 'process OASIS data', 'Alzheimer', or any request to run the OASIS pipeline.
Use this skill whenever the user wants to synchronize NeuroClaw-generated LaTeX manuscripts with Overleaf, read/write .tex files, download/upload projects, create/rename/archive projects, compare versions, or manage project structure. Triggers include: 'sync to Overleaf', 'upload paper to Overleaf', 'Overleaf project', 'LaTeX sync', 'push draft', 'download Overleaf', 'create Overleaf project', 'tex file to Overleaf', or any request involving paper_draft.tex / collaboration. This skill is the **mandatory interface-layer LaTeX collaborator** in NeuroClaw: it strictly enforces pull-first workflow with diff reporting and per-operation user authorization for any write/create/delete action, uses pyoverleaf (cookie-based), preserves Overleaf version history, integrates directly after paper-writing, and never performs unauthorized modifications.
Use this skill whenever the user wants to 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 metabolism, tau). Triggers include: 'PET', 'PET processing', 'SUVR', 'amyloid PET', 'FDG PET', 'tau PET', 'PiB', 'flortaucipir', 'reference region', 'partial volume correction', or any request involving PET neuroimaging data.
Use this skill whenever the user wants an 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. Triggers include: 'PNC', 'Philadelphia Neurodevelopmental Cohort', 'process PNC data', 'PNC fMRI', or any request to run the PNC multimodal pipeline.
Use this skill whenever the user wants an 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. Triggers include: 'PPMI', 'Parkinson', 'Parkinson disease', 'process PPMI data', 'PPMI fMRI', or any request to run the PPMI multimodal pipeline.
Use this skill whenever the user wants an 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. Triggers include: 'REST-meta-MDD', 'MDD', 'Major Depressive Disorder', 'depression resting-state', 'process REST-meta-MDD', or any request to run the REST-meta-MDD pipeline.
Use this skill whenever the user wants an end-to-end workflow for the SEED-IV (SJTU Emotion EEG Dataset - 4 emotions) dataset, including EEG validation, preprocessing, feature extraction, and emotion classification. Triggers include: 'SEED-IV', 'SEED4', 'emotion EEG', 'EEG emotion recognition', 'process SEED-IV', or any request to run the SEED-IV pipeline.