Conditioning

How runtime inputs such as MSAs, homolog prompts, templates, ligands, and initial structures affect predictions. Active reward-driven changes to conditioning also belong under inference/guidance.

15 items with this tag.

Feature extraction

Using learned embeddings, attention-derived features, pooling, or probes for downstream prediction and retrieval. A frozen base model may supply features to a separately trained head.

29 items with this tag.

Guidance

Steering a fixed model with rewards, constraints, gradients, activation edits, or importance reweighting. Backpropagation to an input is not model fine-tuning.

26 items with this tag.

Sampling and search

Exploring candidate sequences, structures, or designs through sampling, recycles, decoding order, search algorithms, and increased inference compute. Physical MD sampling stays under biophysics/molecular-simulation.

14 items with this tag.