Updated 1mo ago
by ma-compbio-lab
SkillFoundry
A framework for discovering, compiling, and validating reusable skills for scientific agents.
43 GitHub stars (43)
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- 30 skills (30 skills found in its SKILL.md files)
- 6 forks (6 forks)
- 1mo ago last update (Last updated 1mo ago)
Install
Skills CLI
npx skills add ma-compbio-lab/SkillFoundry
Asks which skills and agents to install. Just one: npx skills add ma-compbio-lab/SkillFoundry --skill agronomic-experiment-design-starter — add -g for every project.
Claude Code
git clone https://github.com/ma-compbio-lab/SkillFoundrycp -r "SkillFoundry/skills/agriculture-food-and-plant-science/agronomic-experiment-design-starter" ~/.claude/skills/
Copies the agronomic-experiment-design-starter skill into ~/.claude/skills/ for every project (use .claude/skills/ for one project). Repeat for the other skills listed below.
Plugin
/plugin marketplace add ma-compbio-lab/SkillFoundry
Run inside Claude Code if the repository ships a plugin marketplace, then pick plugins from /plugin.
Skills can run code on your machine — read the SKILL.md first.
What it does
In the author's own words, from each skill's SKILL.md — showing the first 30 of 267 files.
-
agronomic-experiment-design-starter
No description in the SKILL.md.
skills/agriculture-food-and-plant-science/ on GitHub (opens in a new tab)agronomic-experiment-design-starter/ SKILL.md -
crop-genomics-and-breeding-starter
No description in the SKILL.md.
skills/agriculture-food-and-plant-science/ on GitHub (opens in a new tab)crop-genomics-and-breeding-starter/ SKILL.md -
disease-and-stress-detection-starter
No description in the SKILL.md.
skills/agriculture-food-and-plant-science/ on GitHub (opens in a new tab)disease-and-stress-detection-starter/ SKILL.md -
food-chemistry-and-quality-modeling-starter
No description in the SKILL.md.
skills/agriculture-food-and-plant-science/ on GitHub (opens in a new tab)food-chemistry-and-quality-modeling-starter/ SKILL.md -
plantcv-plant-phenotyping-starter
No description in the SKILL.md.
skills/agriculture-food-and-plant-science/ on GitHub (opens in a new tab)plantcv-plant-phenotyping-starter/ SKILL.md -
precision-agriculture-sensing-starter
No description in the SKILL.md.
skills/agriculture-food-and-plant-science/ on GitHub (opens in a new tab)precision-agriculture-sensing-starter/ SKILL.md -
soil-rhizosphere-microbiome-analysis-starter
No description in the SKILL.md.
skills/agriculture-food-and-plant-science/ on GitHub (opens in a new tab)soil-rhizosphere-microbiome-analysis-starter/ SKILL.md -
yield-forecasting-starter
No description in the SKILL.md.
skills/agriculture-food-and-plant-science/ on GitHub (opens in a new tab)yield-forecasting-starter/ SKILL.md -
clinicaltrials-study-search
Use this skill to search the current ClinicalTrials.gov v2 API for condition or keyword matches when you need official clinical-study metadata. Do not use it for legacy API URLs or offline work.
skills/clinical-biomedical-data-science/ on GitHub (opens in a new tab)clinicaltrials-study-search/ SKILL.md -
ehr-preprocessing-starter
No description in the SKILL.md.
skills/clinical-biomedical-data-science/ on GitHub (opens in a new tab)ehr-preprocessing-starter/ SKILL.md -
fairlearn-bias-audit-starter
No description in the SKILL.md.
skills/clinical-biomedical-data-science/ on GitHub (opens in a new tab)fairlearn-bias-audit-starter/ SKILL.md -
lifelines-kaplan-meier-starter
No description in the SKILL.md.
skills/clinical-biomedical-data-science/ on GitHub (opens in a new tab)lifelines-kaplan-meier-starter/ SKILL.md -
missing-data-handling-starter
No description in the SKILL.md.
skills/clinical-biomedical-data-science/ on GitHub (opens in a new tab)missing-data-handling-starter/ SKILL.md -
phenotyping-starter
No description in the SKILL.md.
skills/clinical-biomedical-data-science/ on GitHub (opens in a new tab)phenotyping-starter/ SKILL.md -
privacy-preserving-analysis-starter
No description in the SKILL.md.
skills/clinical-biomedical-data-science/ on GitHub (opens in a new tab)privacy-preserving-analysis-starter/ SKILL.md -
time-series-clinical-modeling-starter
No description in the SKILL.md.
skills/clinical-biomedical-data-science/ on GitHub (opens in a new tab)time-series-clinical-modeling-starter/ SKILL.md -
ase-geometry-optimization-starter
No description in the SKILL.md.
skills/computational-chemistry-and-molecular-simulation/ on GitHub (opens in a new tab)ase-geometry-optimization-starter/ SKILL.md -
deepchem-molgraph-featurization
Use this skill to featurize SMILES strings into DeepChem molecular graph objects. Prefer it for local graph-based preprocessing before molecular machine-learning experiments.
skills/computational-chemistry-and-molecular-simulation/ on GitHub (opens in a new tab)deepchem-molgraph-featurization/ SKILL.md -
free-energy-workflows-starter
No description in the SKILL.md.
skills/computational-chemistry-and-molecular-simulation/ on GitHub (opens in a new tab)free-energy-workflows-starter/ SKILL.md -
openmm-forcefield-assignment-starter
No description in the SKILL.md.
skills/computational-chemistry-and-molecular-simulation/ on GitHub (opens in a new tab)openmm-forcefield-assignment-starter/ SKILL.md -
openmm-langevin-dynamics-starter
No description in the SKILL.md.
skills/computational-chemistry-and-molecular-simulation/ on GitHub (opens in a new tab)openmm-langevin-dynamics-starter/ SKILL.md -
openmm-system-minimization
Use this skill to run a deterministic OpenMM energy minimization on a tiny toy system. Do not use it for production molecular dynamics or force-field validation.
skills/computational-chemistry-and-molecular-simulation/ on GitHub (opens in a new tab)openmm-system-minimization/ SKILL.md -
psi4-single-point-energy
Use this skill to run a deterministic Psi4 single-point Hartree-Fock energy on a tiny water molecule. Do not use it for production quantum chemistry benchmarking or large basis-set studies.
skills/computational-chemistry-and-molecular-simulation/ on GitHub (opens in a new tab)psi4-single-point-energy/ SKILL.md -
qm-mm-workflows-starter
No description in the SKILL.md.
skills/computational-chemistry-and-molecular-simulation/ on GitHub (opens in a new tab)qm-mm-workflows-starter/ SKILL.md -
quantum-chemistry-setup-starter
No description in the SKILL.md.
skills/computational-chemistry-and-molecular-simulation/ on GitHub (opens in a new tab)quantum-chemistry-setup-starter/ SKILL.md -
rdkit-conformer-generation-starter
No description in the SKILL.md.
skills/computational-chemistry-and-molecular-simulation/ on GitHub (opens in a new tab)rdkit-conformer-generation-starter/ SKILL.md -
trajectory-analysis-starter
No description in the SKILL.md.
skills/computational-chemistry-and-molecular-simulation/ on GitHub (opens in a new tab)trajectory-analysis-starter/ SKILL.md -
biosamples-sample-search
Use this skill to search EBI BioSamples for public sample metadata by text query or lightweight filters and return compact summaries.
skills/data-acquisition-and-dataset-handling/ on GitHub (opens in a new tab)biosamples-sample-search/ SKILL.md -
frictionless-tabular-validation-starter
No description in the SKILL.md.
skills/data-acquisition-and-dataset-handling/ on GitHub (opens in a new tab)frictionless-tabular-validation-starter/ SKILL.md -
metadata-harmonization-starter
No description in the SKILL.md.
skills/data-acquisition-and-dataset-handling/ on GitHub (opens in a new tab)metadata-harmonization-starter/ SKILL.md
No skill matches that filter.
Review before you install
A skill is a set of instructions and scripts your agent will follow, and it can run code on your machine. Read the SKILL.md and any scripts first — this listing is not a security review.
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