Yeti is a compact tokenizer for protein structures that delivers strong codebook use, token diversity, and reconstruction while enabling from-scratch multimodal generation of plausible sequences and structures with 10x fewer parameters than ESM3.
Roformer: Enhanced transformer with rotary position embedding
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ALiBi enables transformers trained on length-1024 sequences to extrapolate to length-2048 with the same perplexity as a sinusoidal model trained on 2048, while training 11% faster and using 11% less memory.
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Yeti: A compact protein structure tokenizer for reconstruction and multi-modal generation
Yeti is a compact tokenizer for protein structures that delivers strong codebook use, token diversity, and reconstruction while enabling from-scratch multimodal generation of plausible sequences and structures with 10x fewer parameters than ESM3.
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Train Short, Test Long: Attention with Linear Biases Enables Input Length Extrapolation
ALiBi enables transformers trained on length-1024 sequences to extrapolate to length-2048 with the same perplexity as a sinusoidal model trained on 2048, while training 11% faster and using 11% less memory.