Run BindCraft binder design pipelines inside Docker with configurable algorithms.
npx skills add https://github.com/yjcyxky/biominer-skills --skill bindcraft-yjcyxky
Please help me install this Agent Skill. Skill: bindcraft Source: https://github.com/yjcyxky/biominer-skills/tree/main/bindcraft Command: npx skills add https://github.com/yjcyxky/biominer-skills --skill bindcraft-yjcyxky
This Skill enables running BindCraft as a Docker-based binder-design pipeline, simplifying complex setup and enabling reproducible binder-design workflows.
Use this skill to run the BindCraft Docker image: ghcr.io/open-prophetdb/bindcraft:arm64-blackwell with your target JSON and settings.
High-intent search queries and answers about installing and using this skill.
Run de novo binder design inside Docker by using the BindCraft pipeline image, which automates AlphaFold2 backpropagation, ProteinMPNN redesign, and PyRosetta scoring within a containerized Linux environment.
Available binder design trajectory algorithms include 2stage, 3stage, 4stage, greedy, and mcmc, which drive the AlphaFold2 backpropagation and ProteinMPNN redesign workflow stages.
Yes, the binder design pipeline supports custom target, advanced, and filter JSON configurations to define design parameters and trajectory filtering rules.
Yes, the BindCraft Docker pipeline supports switching between multimer and PTM modes for AlphaFold2 predictions during the binder design workflow.
The required Docker image is ghcr.io/open-prophetdb/bindcraft:arm64-blackwell, which packages the AlphaFold2 and ProteinMPNN dependencies for the binder design pipeline.
The pipeline handles binder acceptance and rejection through automated workflows that apply trajectory-based filtering and PyRosetta scoring to rank final designs.
kubiyabotAutomate Docker container and image management via the native Docker CLI.
adaptyvbioAutomate end-to-end binder design with BindCraft and AF2 validation.
PKU-YuanGroupConverts PDF documents to clean, structured Markdown.
junior1pConvert binder discovery goals into estimated protein design pipelines.
