Protein binder design pipeline that can be used to design miniprotein and peptide binders
A flexible de novo binder design workflow using RFdiffusion for backbone generation
Fine-tuning pipeline combining reinforcement learning algorithms (GRPO, DPO) with the ZymCTRL protein language model.
pLM trained with masked diffusion to enable both high-quality representation learning and generative protein design
Open-source framework for combining and composing a variety of structure prediction and other models for design, filtering, or guidance.
Motif-scaffolding pipeline that designs protein sequences around a given motif using the EvoDiff model.
ESM2 is a masked language model trained on UniRef protein sequences. Used for structure prediction, property prediction, functional annotation, and clustering similar proteins.
A reasoning model that proposes modifications to improve protein stability.
A workflow for designing protein binders using co-TIMED, a method for co-designing sequences in a protein complex
ProTrek is a tri-modal protein language model that jointly models protein sequence, structure and function (SSF)
Antibody-specific transformer language model pre-trained on 558M natural antibody sequences.
Llama 3 is a family of multilingual large language models (LLMs) which are pretrained and instruction tuned generative models
BLOSUM (BLOcks SUbstitution Matrix) matrix is a substitution matrix used for sequence alignment of proteins
