open-science

The open-source AI research workbench for scientific research and agent workflows.

npx skills add aipoch/open-science -g -y

24 skills

AlphaFold2 Structure Prediction

Predicts monomer and multimer protein structures with ColabFold and scores them.

aipoch/open-science5.4k

Boltz

Structure prediction for protein, nucleic-acid, and small-molecule complexes with...

aipoch/open-science5.4k

Borzoi

Predict genome-wide functional tracks (RNA-seq, CAGE, DNase, ChIP) from DNA sequence...

aipoch/open-science5.4k

Chai1

Structure prediction for protein, nucleic-acid, and small-molecule complexes with the...

aipoch/open-science5.4k

Compute Env Setup

Prepare reproducible setup instructions and validate a user-managed named software...

aipoch/open-science5.4k

Diffdock

Predict small-molecule binding poses with DiffDock-L (Corso et al.

aipoch/open-science5.4k

DOCX Generation

Use when creating a Word DOCX report from Markdown, converting Markdown tables and...

aipoch/open-science5.4k

Esmfold2

Biohub ESMFold2 / ESMFold2-Fast all-atom co-folding (Candido et al.

aipoch/open-science5.4k

Evo2

Score, embed, and generate DNA sequences with Evo 2, a long-context genomic foundation...

aipoch/open-science5.4k

Fair Esm2

Embed proteins with Meta AI's ESM-2 (`fair-esm` package).

aipoch/open-science5.4k

Figure Composer

Compose one publication-grade multi-panel figure.

aipoch/open-science5.4k

Figure Style

Publication-grade correctness and legibility rules for final-deliverable scientific...

aipoch/open-science5.4k

Indication Dossier

Generate a therapeutic indication dossier.

aipoch/open-science5.4k

Ligandmpnn

Inverse-fold a backbone with ligand, nucleic-acid, and metal context using LigandMPNN...

aipoch/open-science5.4k

Literature Review

Find, verify, and synthesize scientific literature, from "what's the seminal paper for...

aipoch/open-science5.4k

Openfold3

Structure prediction using OpenFold3, an open-weights PyTorch reproduction of...

aipoch/open-science5.4k

Paper Narrative

Judge and reshape the story told by an entire paper figure deck.

aipoch/open-science5.4k

Proteinmpnn

Inverse-fold a protein backbone (PDB structure) into amino-acid sequence with...

aipoch/open-science5.4k

Remote Compute Ssh

Evaluate and use SSH Remote Compute before choosing where to run GPU, high-memory...

aipoch/open-science5.4k

Scgpt

Embed and annotate single-cell expression data with scGPT, a foundation model for...

aipoch/open-science5.4k

Scvi Tools

Probabilistic single-cell RNA-seq with scvi-tools, scVI for a batch-corrected latent...

aipoch/open-science5.4k

Self Awareness

Inspect Open-Science's JavaScript control REPL, discover managed Project files...

aipoch/open-science5.4k

Skill Creator

Create, revise, evaluate, publish, and improve Open-Science Skills through the native...

aipoch/open-science5.4k

Solublempnn

Inverse-fold a backbone with SolubleMPNN, ProteinMPNN retrained on a soluble-PDB...

aipoch/open-science5.4k