Score predicted protein-protein interactions using ipSAE, pDockQ, pDockQ2, and LIS metrics.
npx skills add https://github.com/alex-hh/in-silico-pgdh --skill lyceum-ipsae
Please help me install this Agent Skill. Skill: lyceum_ipsae Source: https://github.com/alex-hh/in-silico-pgdh/tree/main/.claude/skills/lyceum_ipsae Command: npx skills add https://github.com/alex-hh/in-silico-pgdh --skill lyceum-ipsae
This Skill automates the scoring of predicted protein-protein interactions, providing crucial metrics for evaluating binding confidence.
Use the lyceum_ipsae skill to score the protein interaction using the provided PAE file 'pae.json' and structure file 'model.cif'.
High-intent search queries and answers about installing and using this skill.
To score predicted protein-protein interactions, you can use this Skill to compute ipSAE, pDockQ, pDockQ2, and LIS metrics. It accepts PAE and structure files from predictors like AlphaFold and Boltz to evaluate binding confidence.
Protein binding confidence is evaluated using ipSAE, pDockQ, pDockQ2, and LIS scores. These metrics are computed from your provided PAE and structure files to rank and select promising protein binder candidates.
Yes, you need PAE and structure files to calculate ipSAE and pDockQ scores. The Skill requires these inputs from structure prediction outputs like AlphaFold or Boltz to perform the binding confidence analysis.
Yes, you can use this Skill to rank and select designed protein binders. After designing a potential binder, it scores the predicted interaction with the target protein to help identify the most promising candidates.
Yes, this protein interaction scoring tool works with AlphaFold3 and Boltz prediction outputs. It offers input flexibility by accepting PAE and structure files from various structure predictors for comprehensive binding confidence evaluation.
robinbarvaagRetrieve AlphaFold protein structures and confidence metrics by UniProt ID.
junior1pRank protein binder designs using ipSAE_min, LIS, and pDockQ scores.
NVIDIA-BioNeMoFetch AlphaFold protein structures and analyze pLDDT and PAE metrics.
ovachieverPredict protein-ligand docking poses and confidence scores from PDB structures or sequences.
