ma-compbio-lab/skillfoundry
58 skills
$npx skills add ma-compbio-lab/skillfoundrySkillInstalls
admet-modeling-starterUse this starter when a task lands in the ADMET modeling frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.agronomic-experiment-design-starterUse this starter when a task lands in the Agronomic experiment design frontier leaf and the repository has curated resources but no dedicated runtime…ase-geometry-optimization-starterUse this skill to optimize a tiny argon dimer with ASE and summarize the final geometry.benchmarks-and-evaluation-starterUse this starter when a task lands in the Benchmarks and evaluation frontier leaf and the repository has curated resources but no dedicated runtime…biosamples-sample-searchUse this skill to search EBI BioSamples for public sample metadata by text query or lightweight filters and return compact summaries.chembl-molecule-searchUse this skill to search ChEMBL molecules by keyword and return a compact compound summary.climate-ecology-integration-starterUse this starter when a task lands in the Climate-ecology integration frontier leaf and the repository has curated resources but no dedicated runtime…climate-reanalysis-access-starterUse this starter when a task lands in the Climate reanalysis access frontier leaf and the repository has curated resources but no dedicated runtime…clinicaltrials-study-searchUse this skill to search the current ClinicalTrials.gov v2 API for condition or keyword matches when you need official clinical-study metadata.conservation-genomics-and-edna-starterUse this starter when a task lands in the Conservation genomics and eDNA frontier leaf and the repository has curated resources but no dedicated runtime…crop-genomics-and-breeding-starterUse this starter when a task lands in the Crop genomics and breeding frontier leaf and the repository has curated resources but no dedicated runtime…deepchem-circular-featurizationUse this skill to compute compact DeepChem circular fingerprints from a small set of SMILES strings with the repo-managed DeepChem prefix.deepchem-molgraph-featurizationUse this skill to featurize SMILES strings into DeepChem molecular graph objects.disease-and-stress-detection-starterUse this starter when a task lands in the Disease and stress detection frontier leaf and the repository has curated resources but no dedicated runtime…ecosystem-remote-sensing-starterUse this starter when a task lands in the Ecosystem remote sensing frontier leaf and the repository has curated resources but no dedicated runtime…ehr-preprocessing-starterUse this starter when a task lands in the EHR preprocessing frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.fairlearn-bias-audit-starterUse this skill to run a deterministic group fairness audit over a tiny clinical toy cohort with fairlearn.food-chemistry-and-quality-modeling-starterUse this starter when a task lands in the Food chemistry and quality modeling frontier leaf and the repository has curated resources but no dedicated runtime…free-energy-workflows-starterUse this starter when a task lands in the Free-energy workflows frontier leaf and the repository has curated resources but no dedicated runtime implementation…frictionless-tabular-validation-starterUse this skill to validate a small CSV or TSV table against a simple Frictionless schema and emit a compact machine-readable error summary.gbif-dataset-search-starterUse this skill to query the official GBIF dataset-search API and summarize a small biodiversity dataset result set.gbif-species-occurrence-search-starterUse this skill to query the official GBIF API for a canonical species match and a small live occurrence sample.geopandas-spatial-join-starterUse this skill to run a deterministic point-in-polygon join with GeoPandas and summarize the result in compact JSON.lifelines-kaplan-meier-starterUse this skill to run a deterministic Kaplan-Meier survival analysis over a toy cohort and summarize per-group survival curves.metadata-harmonization-starterUse this skill to harmonize small metadata tables with inconsistent column names and categorical labels into one canonical TSV plus a compact JSON summary.missing-data-handling-startermolecular-generation-starternumcodecs-compression-decompression-starterUse this skill to round-trip a small integer matrix through a deterministic numcodecs compressor and inspect the encoded payload summary.openmm-forcefield-assignment-starterUse this skill to assign a simple water force field to a tiny PDB topology with OpenMM and summarize the resulting system.openmm-langevin-dynamics-starterUse this skill to run a deterministic toy Langevin dynamics simulation in OpenMM and inspect a compact trajectory summary.openmm-system-minimizationUse this skill to run a deterministic OpenMM energy minimization on a tiny toy system.phenotyping-starterphysics-informed-forecasting-starterplantcv-plant-phenotyping-starterUse this skill to generate a tiny synthetic plant image, segment it with PlantCV, and summarize simple morphology-style phenotyping measurements.precision-agriculture-sensing-starterprivacy-preserving-analysis-starterpsi4-single-point-energyUse this skill to run a deterministic Psi4 single-point Hartree-Fock energy on a tiny water molecule.pyarrow-format-conversion-starterUse this skill to convert a small tabular file into Parquet with PyArrow and inspect a deterministic round-trip summary.qm-mm-workflows-starterqsar-property-prediction-starterquantum-chemistry-setup-starterraster-vector-ingestion-starterrasterio-windowed-raster-preprocessing-starterUse this skill to generate a tiny toy raster with Rasterio, extract a window, downsample it, and summarize the preprocessing result in compact JSON.rdkit-conformer-generation-starterUse this skill to generate a small deterministic conformer ensemble with RDKit ETKDG and summarize the lowest-energy structures.rdkit-molecular-descriptorsUse this skill to compute compact cheminformatics descriptors from one SMILES string with RDKit.rdkit-molecule-standardizationUse this skill to standardize one small-molecule SMILES string with RDKit MolStandardize.rdkit-scaffold-analysis-starterUse this skill to compute Murcko scaffold summaries for a small local molecule set with RDKit.rocrate-metadata-bundle-starterUse this skill to package a small local data file into an RO-Crate directory with basic provenance-rich metadata and a compact summary of the generated graph.scientific-map-and-dashboard-generation-startersoil-rhizosphere-microbiome-analysis-starterUse this starter when a task lands in the Soil / rhizosphere / microbiome analysis frontier leaf and the repository has curated resources but no dedicated…spatial-interpolation-and-uncertainty-starterUse this starter when a task lands in the Spatial interpolation and uncertainty frontier leaf and the repository has curated resources but no dedicated runtime…synthetic-toy-dataset-generator-starterUse this skill to generate a deterministic tiny dataset bundle for tests, demos, and smoke fixtures.time-series-clinical-modeling-starterUse this starter when a task lands in the Time-series clinical modeling frontier leaf and the repository has curated resources but no dedicated runtime…trajectory-analysis-starterUse this starter when a task lands in the Trajectory analysis frontier leaf and the repository has curated resources but no dedicated runtime implementation…virtual-screening-starterUse this starter when a task lands in the Virtual screening frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.xarray-climate-cube-starterUse this skill to build a deterministic toy climate cube with Xarray and summarize simple spatiotemporal statistics.yield-forecasting-starterUse this starter when a task lands in the Yield forecasting frontier leaf and the repository has curated resources but no dedicated runtime implementation yet.zarr-chunked-array-store-starterUse this skill to convert a small numeric matrix into a chunked, compressed Zarr store and inspect a deterministic summary of its layout.