getcompanion-ai
49 verified skills380,007 total stars
ligandmpnn
Design protein sequences around ligand or small-molecule contexts with LigandMPNN-style workflows. Use when a task asks for ligand-aware protein design, residue redesign, constraints, or design ranking.
data-ai8,229
chai1
Run or prepare Chai-1 structure predictions for biomolecular complexes. Use when a task asks for Chai-1 inputs, multimers, ligand/nucleic acid structure prediction, or confidence review.
testing8,229
evo2
Use Evo2-style biological sequence models for generation, scoring, or variant-effect analysis. Use when a task asks about DNA/RNA/protein sequence likelihood, editing, design, or long-context biological modeling.
data-ai8,229
esmfold2
Predict quick protein structures with ESMFold-style workflows. Use when a task needs fast MSA-free folding, sequence triage, variant structure screening, or confidence review.
tools8,229
indication-dossier
Build a source-backed biomedical indication dossier. Use when a research task asks for disease biology, target rationale, patient segmentation, biomarkers, trials, drugs, competitive landscape, or translational evidence.
development8,229
managed-model-endpoints
Register or audit Feynman-managed model endpoints. Use when a research workflow needs a local or remote model service, endpoint health checks, credential refs, startup scripts, or inference routing.
testing8,229
fair-esm2
Use ESM2 protein language models for embeddings, mutation scoring, remote homology, or representation analysis. Use when a task needs protein embeddings, zero-shot variant scores, clustering, or sequence-function triage.
data-ai8,229
figure-composer
Compose a publication-grade multi-panel scientific figure from a claim, dataset, or draft result. Use when the task needs panel planning, consistent figure layout, figure review, or final figure assembly.
testing8,229
remote-compute-modal
Dispatch Feynman research notebook or experiment jobs to Modal. Use when a task has explicitly chosen Modal for bounded cloud compute, GPU jobs, or reproducible remote execution.
testing8,229
figure-style
Apply scientific plotting and figure-quality rules to a single plot or panel. Use when drawing, cleaning, labeling, or reviewing plots for research artifacts.
testing8,229
paper-narrative
Shape the scientific story across a manuscript, abstract, figures, and evidence. Use when a task asks for paper structure, figure order, argument flow, missing analyses, or manuscript revision strategy.
testing8,229
proteinmpnn
Design protein sequences from fixed backbone structures with ProteinMPNN-style workflows. Use when a task asks for backbone-conditioned sequence design, mutation suggestions, fixed residues, or design filtering.
content-media8,229
pdf-explore
Read, extract, and cross-check content across scientific PDFs. Use when a task needs methods, figures, tables, citations, accessions, or claims from multiple places in one or more papers.
testing8,229
scgpt
Use scGPT-style single-cell foundation model workflows. Use when a task asks for single-cell embeddings, perturbation prediction, cell annotation, batch transfer, or gene-program analysis.
data-ai8,229
openfold3
Run or plan OpenFold3-style structure prediction workflows. Use when a task asks for open protein or complex prediction, setup, model comparison, or reproducibility around OpenFold-family outputs.
testing8,229
skill-creator
Create or revise Feynman skills. Use when a research workflow needs a reusable on-demand capability, skill metadata, trigger wording, references, scripts, or skill validation.
data-ai8,229
self-awareness
Inspect the active Feynman workbench session, artifacts, execution log, settings, and provenance. Use when the task asks what happened in this session, which files were written, what tools ran, or what remains unverified.
tools8,229
scvi-tools
Run scvi-tools single-cell workflows. Use when a task asks for scVI/scANVI setup, latent embeddings, batch correction, differential expression, cell annotation, or reproducible AnnData analysis.
tools8,229
customize
Configure Feynman specialists, skills, connectors, permissions, memory categories, compute providers, and project setup. Use when the task asks to customize the research workbench or create a reusable Feynman research capability.
development8,229
solublempnn
Design or screen protein sequences for solubility-aware constraints with SolubleMPNN-style workflows. Use when a task asks for soluble protein design, expression-friendly variants, or solubility risk filtering.
data-ai8,229
using-model-endpoint
Call a configured Feynman model endpoint and interpret its response. Use when a task needs inference from a registered endpoint, remote model API, local model service, or custom connector-backed predictor.
development8,229
borzoi
Use Borzoi-style regulatory genomics models for sequence-to-expression or variant-effect analysis. Use when the task asks for noncoding variant impact, regulatory sequence design, or expression prediction.
data-ai8,229
remote-compute-ssh
Run Feynman research jobs on SSH, Slurm, or lab hosts. Use when a task needs remote host setup, job submission, log harvest, artifact sync, or GPU/cluster execution outside Modal.
research8,229
product-self-knowledge
Answer questions about Feynman's own product behavior, runtime, settings, commands, skills, connectors, and package state. Use when a response would claim what Feynman can do or how it is wired.
data-ai8,229
alphafold2
Predict or audit protein structures with AlphaFold2-style workflows. Use when a research task needs monomer/multimer structure prediction, MSA/template handling, confidence metrics, or comparison against PDB/AlphaFold references.
testing8,229
boltz
Run or plan Boltz biomolecular structure predictions for proteins, complexes, ligands, or nucleic-acid assemblies. Use when a task asks for Boltz setup, inputs, outputs, confidence interpretation, or reproduction.
testing8,229
diffdock
Run or plan DiffDock molecular docking workflows. Use when a task asks for protein-ligand pose prediction, docking setup, ligand/protein preparation, pose ranking, or docking-result verification.
documentation8,229
compute-env-setup
Set up a reproducible Feynman compute environment for research jobs. Use when a task needs Python/R packages, GPU libraries, containers, Modal, SSH, caches, or managed model runtime setup.
development8,229
eli5
Explain research, papers, or technical ideas in plain English with minimal jargon, concrete analogies, and clear takeaways. Use when the user says "ELI5 this", asks for a simple explanation of a paper or research result, wants jargon removed, or asks what something technically dense actually means.
development8,095
modal-compute
Run explicitly chosen research benchmark or replication jobs on Modal's serverless infrastructure. Use when a Feynman research workflow needs burst remote GPU compute and the Modal CLI is available.
tools8,095
session-search
Recover prior Feynman work from session transcripts. Use the optional /search command only when it is installed and visible; otherwise search local session JSONL files directly.
tools8,095
watch
Create a research watch baseline and optionally schedule follow-up checks when scheduling tools are visible. Use when the user asks to monitor a field, track new papers, watch for updates, or set up alerts on a research area.
tools8,095
research-review
Run a tough but constructive internal research critique of an AI research artifact. Use when the user asks for a review, critique, feedback on a paper or draft, or wants to identify weaknesses before submission.
data-ai8,095
jobs
Inspect visible research run state, scheduled research follow-ups when available, and durable watch artifacts. Use when the user asks what's running for a research workflow or wants research-run status.
data-ai8,095
runpod-compute
Provision and manage GPU pods on RunPod for explicitly chosen long-running research experiments. Use when a Feynman replication, benchmark, or dataset-heavy research run needs persistent GPU compute with SSH access.
testing8,095
replication
Plan a replication of a paper, claim, or benchmark, and execute only after an explicit environment choice. Use when the user asks to replicate results, reproduce an experiment, verify a claim empirically, or build a replication package.
development8,095
docker
Execute research code inside isolated Docker containers for safe replication, experiments, and benchmarks. Use when the user selects Docker as the execution environment or asks to run code safely, in isolation, or in a sandbox.
development8,095
alpha-research
Search, read, and query research papers via Feynman's alphaXiv-backed alpha tools. Use when the user asks about academic papers, wants to find research on a topic, needs to read a specific paper, ask questions about a paper, inspect a paper's code repository, or manage paper annotations.
tools8,095
preview
Preview Markdown, LaTeX, PDF, or code artifacts when preview commands are visible, or fall back to shell/browser tools. Use when the user wants to review a written artifact, export a report, or view a rendered document.
tools8,095
autoresearch
Bounded research experiment loop that tries hypotheses, measures benchmark evidence, keeps what works, and records what fails. Use when the user asks to optimize a research metric, run an experiment loop, improve model/retrieval/evaluation performance iteratively, or benchmark a research hypothesis.
data-ai8,095
ml-training-recipe
Find implementable ML training recipes from papers, datasets, docs, and code. Use when the user wants to fine-tune, train, reproduce, or choose a practical ML method, dataset, hyperparameter setup, or benchmark recipe.
development6,879
literature-review
Run a literature review using paper search and primary-source synthesis. Use when the user asks for a lit review, paper survey, state of the art, or academic landscape summary on a research topic.
research5,697
paper-code-audit
Compare a paper's claims against its public codebase. Use when the user asks to audit a paper, check code-claim consistency, verify reproducibility of a specific paper, or find mismatches between a paper and its implementation.
development5,697
paper-writing
Turn research findings into a polished paper-style draft with sections, equations, and citations. Use when the user asks to write a paper, draft a report, write up findings, or produce a technical document from collected research.
testing5,697
session-log
Write a durable session log capturing completed work, findings, open questions, and next steps. Use when the user asks to log progress, save session notes, write up what was done, or create a research diary entry.
documentation5,697
contributing
Contribute changes to the Feynman repository itself. Use when the task is to add features, fix bugs, update prompts or skills, change install or release behavior, improve docs, or prepare a focused PR against this repo.
documentation5,697
deep-research
Run a thorough, source-heavy investigation on any topic. Use when the user asks for deep research, a comprehensive analysis, an in-depth report, or a multi-source investigation. Produces a cited research brief with provenance tracking.
testing5,697
source-comparison
Compare multiple sources on a topic and produce a grounded comparison matrix. Use when the user asks to compare papers, tools, approaches, frameworks, or claims across multiple sources.
tools5,697
peer-review
Simulate a tough but constructive peer review of an AI research artifact. Use when the user asks for a review, critique, feedback on a paper or draft, or wants to identify weaknesses before submission.
data-ai5,697