GitHub
setup
First-time setup for protein design tools. Use this skill when: (1) User is new and hasn't run any tools yet, (2) Commands fail with "file not found" or "modal: command not found", (3) Modal authentication erro...
☆ 91查看技能
databases bioinformatics AI 技能
发现 databases bioinformatics 相关 Skills，比较来源仓库和用途，查看适合你工作流的技能说明。
分类目录: databases bioinformatics
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GitHub
alphafold
Validate protein designs using AlphaFold2 structure prediction. Use this skill when: (1) Validating designed sequences fold correctly, (2) Predicting binder-target complex structures, (3) Calculating confidence...
☆ 91查看技能
GitHub
bindcraft
End-to-end binder design using BindCraft hallucination. Use this skill when: (1) Designing protein binders with built-in AF2 validation, (2) Running production-quality binder campaigns, (3) Using different desi...
☆ 91查看技能
GitHub
esm
ESM2 protein language model for embeddings and sequence scoring. Use this skill when: (1) Computing pseudo-log-likelihood (PLL) scores, (2) Getting protein embeddings for clustering, (3) Filtering designs by se...
☆ 91查看技能
GitHub
protein-design-workflow
End-to-end guidance for protein design pipelines. Use this skill when: (1) Starting a new protein design project, (2) Need step-by-step workflow guidance, (3) Understanding the full design pipeline, (4) Plannin...
☆ 91查看技能
GitHub
proteinmpnn
Design protein sequences using ProteinMPNN inverse folding. Use this skill when: (1) Designing sequences for RFdiffusion backbones, (2) Redesigning existing protein sequences, (3) Fixing specific residues while...
☆ 91查看技能
GitHub
rfdiffusion
Generate protein backbones using RFdiffusion, a diffusion-based generative model for de novo protein structure generation. Use this skill when: (1) Designing binder scaffolds for a target protein, (2) Generatin...
☆ 91查看技能
GitHub
uniprot
Access UniProt for protein sequence and annotation retrieval. Use this skill when: (1) Looking up protein sequences by accession, (2) Finding functional annotations, (3) Getting domain boundaries, (4) Finding h...
☆ 91查看技能
GitHub
boltzgen
All-atom protein design using BoltzGen diffusion model. Use this skill when: (1) Need side-chain aware design from the start, (2) Designing around small molecules or ligands, (3) Want all-atom diffusion (not ju...
☆ 91查看技能
GitHub
protein-qc
Quality control metrics and filtering thresholds for protein design. Use this skill when: (1) Evaluating design quality for binding, expression, or structure, (2) Setting filtering thresholds for pLDDT, ipTM, P...
☆ 91查看技能
GitHub
foldseek
Structure similarity search with Foldseek. Use this skill when: (1) Finding similar structures in PDB/AFDB databases, (2) Structural homology search, (3) Database queries by 3D structure, (4) Finding remote hom...
☆ 91查看技能
GitHub
boltz
Structure prediction using Boltz-1/Boltz-2, an open biomolecular structure predictor. Use this skill when: (1) Predicting protein complex structures, (2) Validating designed binders, (3) Need open-source altern...
☆ 91查看技能
GitHub
network-analysis
Analyze network structures, identify communities, measure centrality, and visualize relationships for social networks and organizational structures
☆ 84查看技能
GitHub
zz-code-recon
Deep architectural context building for security audits. Use when conducting security reviews, building codebase understanding, mapping trust boundaries, or preparing for vulnerability analysis. Inspired by Tra...
☆ 54查看技能
GitHub
research-synthesis
Synthesize research findings for OAK planning using the oak.plan-research workflow. Use when consolidating findings from codebase exploration, comparing approaches, or creating research/*.md documents.
☆ 48查看技能
GitHub
protein-assembly
Guidance for designing fusion protein gBlock sequences from multiple protein sources. This skill applies when tasks involve combining proteins from PDB databases, plasmid files, and fluorescent protein database...
☆ 46查看技能
GitHub
protein-assembly
Guidance for designing and assembling multi-component fusion protein sequences, particularly for FRET biosensors and tagged constructs. This skill applies when tasks involve identifying proteins by spectral pro...
☆ 46查看技能
GitHub
raman-fitting
This skill provides guidance for fitting peaks in Raman spectroscopy data, particularly for materials like graphene. Use this skill when tasks involve Raman spectrum analysis, peak fitting (G peak, 2D peak, D p...
☆ 46查看技能
GitHub
feal-linear-cryptanalysis
This skill provides guidance for FEAL cipher linear cryptanalysis tasks. It should be used when recovering encryption keys from FEAL-encrypted data using known plaintext-ciphertext pairs, implementing linear ap...
☆ 46查看技能
GitHub
dna-assembly
Guidance for Golden Gate assembly primer design and DNA assembly tasks. This skill should be used when designing primers for Golden Gate cloning, Type IIS restriction enzyme assembly, or multi-fragment DNA asse...
☆ 46查看技能
GitHub
dna-assembly
Guidance for DNA assembly tasks including Golden Gate assembly, Gibson assembly, and restriction enzyme-based cloning. This skill should be used when designing primers for Type IIS restriction enzymes (BsaI, Bs...
☆ 46查看技能
GitHub
dna-insert
Specialized skill for designing primers to insert DNA sequences into circular plasmids using Q5 site-directed mutagenesis (SDM). This skill should be used when tasks involve inserting sequences into plasmids, d...
☆ 46查看技能
GitHub
sam-cell-seg
This skill provides guidance for tasks involving MobileSAM or Segment Anything Model (SAM) for cell segmentation, mask refinement, and polygon extraction from images. Use when working with SAM-based image segme...
☆ 46查看技能
GitHub
bn-fit-modify
Guide for Bayesian Network tasks involving structure learning, parameter fitting, intervention, and sampling. This skill should be used when working with pgmpy or similar libraries to recover DAG structures fro...
☆ 46查看技能
默认按已收录数据中的 GitHub 仓库 Stars 排序。Stars 属于来源仓库，同一仓库的多个技能可能共享相同数值；它反映仓库关注度，不代表单个技能的安装量或质量评分。