Agent skills
Skills you can use with AI coding agents, indexed from public GitHub repositories.
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lamindb
This skill should be used when working with LaminDB, an open-source data framework for biology that makes data queryable, traceable, reproducible, and FAIR. Use when managing biological datasets (scRNA-seq, spatial, flow cytometry, etc.), tracking computational workflows, curating and validating data with biological ontologies, building data lakehouses, or ensuring data lineage and reproducibility in biological research. Covers data management, annotation, ontologies (genes, cell types, diseases, tissues), schema validation, integrations with workflow managers (Nextflow, Snakemake) and MLOps platforms (W&B, MLflow), and deployment strategies.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-orchestrator
Meta-agent that routes bioinformatics requests to specialised sub-skills. Handles file type detection, analysis planning, report generation, and reproducibility export.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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patiently-ai
Patiently AI simplifies medical documents for patients. Takes doctor's letters, test results, prescriptions, discharge summaries, and clinical notes and explains them in clear, personalised language. Built by PharmaTools.AI.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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leads-literature-mining
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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tooluniverse-spatial-omics-analysis
Computational analysis framework for spatial multi-omics data integration. Given spatially variable genes (SVGs), spatial domain annotations, tissue type, and disease context from spatial transcriptomics/proteomics experiments (10x Visium, MERFISH, DBiTplus, SLIDE-seq, etc.), performs comprehensive biological interpretation including pathway enrichment, cell-cell interaction inference, druggable target identification, immune microenvironment characterization, and multi-modal integration. Produces a detailed markdown report with Spatial Omics Integration Score (0-100), domain-by-domain characterization, and validation recommendations. Uses 70+ ToolUniverse tools across 9 analysis phases. Use when users ask about spatial transcriptomics analysis, spatial omics interpretation, tissue heterogeneity, spatial gene expression patterns, tumor microenvironment mapping, tissue zonation, or cell-cell communication from spatial data.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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neurokit2
Comprehensive biosignal processing toolkit for analyzing physiological data including ECG, EEG, EDA, RSP, PPG, EMG, and EOG signals. Use this skill when processing cardiovascular signals, brain activity, electrodermal responses, respiratory patterns, muscle activity, or eye movements. Applicable for heart rate variability analysis, event-related potentials, complexity measures, autonomic nervous system assessment, psychophysiology research, and multi-modal physiological signal integration.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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tooluniverse-rnaseq-deseq2
Production-ready RNA-seq differential expression analysis using PyDESeq2. Performs DESeq2 normalization, dispersion estimation, Wald testing, LFC shrinkage, and result filtering. Handles multi-factor designs, multiple contrasts, batch effects, and integrates with gene enrichment (gseapy) and ToolUniverse annotation tools (UniProt, Ensembl, OpenTargets). Supports CSV/TSV/H5AD input formats and any organism. Use when analyzing RNA-seq count matrices, identifying DEGs, performing differential expression with statistical rigor, or answering questions about gene expression changes.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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systematic-debugging
Use when encountering any bug, test failure, or unexpected behavior, before proposing fixes
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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chemical-property-lookup
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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tooluniverse-single-cell
Production-ready single-cell and expression matrix analysis using scanpy, anndata, and scipy. Performs scRNA-seq QC, normalization, PCA, UMAP, Leiden/Louvain clustering, differential expression (Wilcoxon, t-test, DESeq2), cell type annotation, per-cell-type statistical analysis, gene-expression correlation, batch correction (Harmony), trajectory inference, and cell-cell communication analysis. NEW: Analyzes ligand-receptor interactions between cell types using OmniPath (CellPhoneDB, CellChatDB), scores communication strength, identifies signaling cascades, and handles multi-subunit receptor complexes. Integrates with ToolUniverse gene annotation tools (HPA, Ensembl, MyGene, UniProt) and enrichment tools (gseapy, PANTHER, STRING). Supports h5ad, 10X, CSV/TSV count matrices, and pre-annotated datasets. Use when analyzing single-cell RNA-seq data, studying cell-cell interactions, performing cell type differential expression, computing gene-expression correlations by cell type, analyzing tumor-immune communication, or answering questions about scRNA-seq datasets.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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ligandmpnn
Ligand-aware protein sequence design using LigandMPNN. Use this skill when: (1) Designing sequences around small molecules, (2) Enzyme active site design, (3) Ligand binding pocket optimization, (4) Metal coordination site design, (5) Cofactor binding proteins.
For standard protein design, use proteinmpnn. For solubility optimization, use solublempnn.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-multi-omics-mofa-integration
Multi-Omics Factor Analysis (MOFA2) for unsupervised integration of multiple data modalities. Identifies shared and view-specific sources of variation. Use when integrating RNA-seq, proteomics, methylation, or other omics to discover latent factors driving biological variation across modalities.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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virtual-lab-agent
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-rna-quantification-alignment-free-quant
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-atac-seq-atac-peak-calling
Call accessible chromatin regions from ATAC-seq data using MACS3 with ATAC-specific parameters. Use when identifying open chromatin regions from aligned ATAC-seq BAM files, different from ChIP-seq peak calling.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-systems-biology-gene-essentiality
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-de-deseq2-basics
Perform differential expression analysis using DESeq2 in R/Bioconductor. Use for analyzing RNA-seq count data, creating DESeqDataSet objects, running the DESeq workflow, and extracting results with log fold change shrinkage. Use when performing DE analysis with DESeq2.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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monarch-database
Query the Monarch Initiative knowledge graph for disease-gene-phenotype associations across species. Integrates OMIM, ORPHANET, HPO, ClinVar, and model organism databases. Use for rare disease gene discovery, phenotype-to-gene mapping, cross-species disease modeling, and HPO term lookup.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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glycoengineering
Analyze and engineer protein glycosylation. Scan sequences for N-glycosylation sequons (N-X-S/T), predict O-glycosylation hotspots, and access curated glycoengineering tools (NetOGlyc, GlycoShield, GlycoWorkbench). For glycoprotein engineering, therapeutic antibody optimization, and vaccine design.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-phasing-imputation-haplotype-phasing
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-filter-sequences
Filter and select sequences by criteria (length, ID, GC content, patterns) using Biopython. Use when subsetting sequences, removing unwanted records, or selecting by specific criteria.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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bio-atac-seq-footprinting
Detect transcription factor binding sites through footprinting analysis in ATAC-seq data using TOBIAS. Use when identifying TF occupancy patterns within accessible regions, as TF binding protects DNA from Tn5 cutting.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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claims-appeals
FreedomIntelligence/OpenClaw-Medical-Skills 2,009
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drug-discovery-search
End-to-end drug discovery platform combining ChEMBL compounds, DrugBank, targets, and FDA labels. Natural language powered by Valyu.
FreedomIntelligence/OpenClaw-Medical-Skills 2,009