Skill OpenCode
An agent that interprets spatial transcriptomics data to propose mechanistic hypotheses and analyze tissue organization.
not rated 115 3mo ago A 26 tokens
openclaw-stagent
146Skill OpenCode
Spatial analyst.
not rated 115 3mo ago A 8 tokens
Skill OpenCode
Comprehensive AI-powered tumor microenvironment immune profiling integrating bulk deconvolution, single-cell analysis, and spatial transcriptomics for immunotherapy biomarker discovery.
not rated 115 3mo ago A 42 tokens
Skill OpenCode
Comprehensive immune repertoire analysis for T-cell and B-cell receptor sequencing data. Analyze TCR/BCR repertoires to assess clonality, diversity, V(D)J gene usage, CDR3 characteristics, convergence, and predict epitope specificity. Integrate with single-cell data for clonotype-phenotype associations. Use for…
not rated 115 3mo ago A 106 tokens
Skill OpenCode
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…
not rated 115 3mo ago A 233 tokens
Skill OpenCode
Analyze spatial transcriptomics data to map gene expression in tissue architecture. Supports 10x Visium, MERFISH, seqFISH, Slide-seq, and imaging-based platforms. Performs spatial clustering, domain identification, cell-cell proximity analysis, spatial gene expression patterns, tissue architecture mapping, and…
not rated 115 3mo ago A 125 tokens
Skill OpenCode
Annotate scRNA-seq.
not rated 115 3mo ago A 17 tokens
Skill OpenCode
|.
not rated 115 3mo ago A 6 tokens
pantheon-omics
153Skill OpenCode
|.
not rated 115 3mo ago A 6 tokens
pantheon-openst
154Skill OpenCode
|.
not rated 115 3mo ago A 6 tokens
Skill OpenCode
|.
not rated 115 3mo ago A 9 tokens
pantheon-scfm
156Skill OpenCode
|.
not rated 115 3mo ago A 7 tokens
pantheon-spatial
157Skill OpenCode
|.
not rated 115 3mo ago A 6 tokens
Skill OpenCode
Query the KEGG REST API for biological pathways, pathway gene lists, and gene info. Use when users ask about metabolic/signaling pathways, pathway genes, KEGG IDs, or gene-to-pathway mapping.
not rated 115 3mo ago A 48 tokens
Skill OpenCode
Define tumor scRNA-seq pipeline family and phase-1 demo target.
not rated 115 3mo ago A 24 tokens
Skill OpenCode
Generate PLAN.yaml for detailed metagenomic analysis using R phyloseq-based functions.
not rated 115 3mo ago A 22 tokens
Skill OpenCode
Generate PLAN.yaml for tumor scRNA-seq heterogeneity and trajectory analysis.
not rated 115 3mo ago A 27 tokens
Skill OpenCode
Ligand-aware protein sequence design with LigandMPNN for small molecules, metals, cofactors, and DNA/RNA binding sites.
not rated 115 3mo ago A 35 tokens
Skill OpenCode
Validate protein designs using AlphaFold2 structure prediction: select backend, run prediction, extract confidence metrics (pLDDT, pTM, ipTM, PAE), assess quality against thresholds, and troubleshoot runtime errors.
not rated 115 3mo ago A 51 tokens
Skill OpenCode
Install and run RefHiC for reference-panel-guided Hi-C loop calling and TAD boundary annotation, including reference panel configuration, prediction, FDR-based selection, and output interpretation.
not rated 115 3mo ago A 47 tokens
registry
165Skill OpenCode
Route user requests to domain, discipline, and candidate tumor scRNA-seq pipelines via SQLite pipeline routes.
not rated 115 3mo ago A 23 tokens
Skill OpenCode
Generate structured tumor scRNA-seq analysis report.
not rated 115 3mo ago A 19 tokens
Skill OpenCode
Annotated matrices for single-cell genomics. Stores X with obs/var metadata, layers, embeddings (obsm/varm), graphs (obsp/varp), uns. Use for .h5ad/.zarr I/O, concatenation, scverse integration. For analysis use scanpy; for probabilistic models use scvi-tools.
not rated 115 3mo ago A 79 tokens
Skill OpenCode
GRN inference from expression via GRNBoost2 (gradient boosting) or GENIE3 (Random Forest). Load matrix, filter by TFs, infer TF-target-importance links, save network. Dask-parallelized to single-cell scale. Core SCENIC component.
not rated 115 3mo ago A 68 tokens
At most 3 mods per repository are shown here, and a mod shipped inside a plugin is left to that plugin's page — the rest are on their repository pages: