EvoDiff
Microsoft Research
Discrete diffusion framework for controllable protein generation in sequence space. Combines evolutionary-scale data with diffusion model conditioning for generating diverse, structurally plausible proteins.
Best For
Sequence-space protein generation with evolutionary conditioning; MSA-conditioned design
License
Open Source (MIT)
Strengths
- +Discrete diffusion (novel approach)
- +MSA-conditioned generation
- +MIT license
- +Structurally plausible outputs
Limitations
- −Sequence-only generation
- −Experimental validation limited
- −Requires evolutionary context for best results
R&D Pipeline Coverage
Related Tools
ProGen2
Salesforce Research
Autoregressive protein language model (up to 6.4B parameters) for controllable protein sequence generation. Generates functional proteins conditioned on protein family or function tags.
ESM-2
Meta AI (FAIR)
State-of-the-art protein language model (up to 15B parameters) trained on 250M protein sequences. Provides rich per-residue and per-sequence embeddings used across structure prediction, function annotation, and variant effect scoring.
RFdiffusion
Baker Lab / IPD (University of Washington)
Diffusion-based generative model for de novo protein backbone design. Generates novel protein structures conditioned on binding targets, symmetry, or functional sites.
More in Protein LMs
ESM-2
Meta AI (FAIR)
State-of-the-art protein language model (up to 15B parameters) trained on 250M protein sequences. Provides rich per-residue and per-sequence embeddings used across structure prediction, function annotation, and variant effect scoring.
ProGen2
Salesforce Research
Autoregressive protein language model (up to 6.4B parameters) for controllable protein sequence generation. Generates functional proteins conditioned on protein family or function tags.
OpenCRISPR-1
Profluent Bio
First open-source AI-generated CRISPR-Cas9 gene editor. Protein language model-designed Cas9 variant with comparable editing efficiency to SpCas9 but novel sequence. Demonstrates LLM-driven protein engineering at scale.
Stay updated on EvoDiff
Weekly newsletter covering AI tool releases, benchmarks, and what practitioners actually use.