Index _ | A | C | D | E | F | G | I | J | L | M | N | O | P | R | S | T | U | W _ __init__() (openprotein.align.AlignAPI method) (openprotein.align.MSAFuture method) (openprotein.APISession method) (openprotein.data.AssayDataset method) (openprotein.data.DataAPI method) (openprotein.design.DesignAPI method) (openprotein.design.DesignFuture method) (openprotein.embeddings.EmbeddingsAPI method) (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) (openprotein.embeddings.SVDModel method) (openprotein.embeddings.UMAPModel method) (openprotein.fold.AlphaFold2Model method) (openprotein.fold.ESMFoldModel method) (openprotein.fold.FoldAPI method) (openprotein.fold.FoldResultFuture method) (openprotein.predictor.PredictorAPI method) (openprotein.predictor.PredictorModel method) A abnumber() (openprotein.align.AlignAPI method) abnumber_file() (openprotein.align.AlignAPI method) af2 (openprotein.fold.FoldAPI property) algorithm (openprotein.design.DesignFuture property) align (openprotein.OpenProtein property) AlignAPI (class in openprotein.align) allowed_tokens (openprotein.design.DesignFuture property) alphafold2 (openprotein.fold.FoldAPI attribute) AlphaFold2Model (class in openprotein.fold) APISession (class in openprotein) assay (openprotein.design.DesignFuture property) AssayDataset (class in openprotein.data) attn() (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) C cancelled() (openprotein.align.MSAFuture method) (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.embeddings.SVDModel method) (openprotein.embeddings.UMAPModel method) (openprotein.fold.FoldResultFuture method) clustalo() (openprotein.align.AlignAPI method) clustalo_file() (openprotein.align.AlignAPI method) create() (openprotein.data.DataAPI method) (openprotein.embeddings.ESMModel class method) (openprotein.embeddings.OpenProteinModel class method) (openprotein.embeddings.PoET2Model class method) (openprotein.embeddings.PoETModel class method) (openprotein.fold.AlphaFold2Model static method) (openprotein.fold.ESMFoldModel static method) create_genetic_algorithm_design() (openprotein.design.DesignAPI method) create_msa() (openprotein.align.AlignAPI method) criteria (openprotein.design.DesignFuture property) crossover_prob (openprotein.design.DesignFuture property) crossover_prob_pointwise (openprotein.design.DesignFuture property) crossvalidate() (openprotein.predictor.PredictorModel method) D data (openprotein.OpenProtein property) DataAPI (class in openprotein.data) delete() (openprotein.embeddings.SVDModel method) (openprotein.embeddings.UMAPModel method) (openprotein.predictor.PredictorModel method) delete_predictor() (openprotein.predictor.PredictorAPI method) design (openprotein.OpenProtein property) DesignAPI (class in openprotein.design) DesignFuture (class in openprotein.design) done() (openprotein.align.MSAFuture method) (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.embeddings.SVDModel method) (openprotein.embeddings.UMAPModel method) (openprotein.fold.FoldResultFuture method) E embed() (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) (openprotein.embeddings.SVDModel method) (openprotein.embeddings.UMAPModel method) embedding (openprotein.OpenProtein property) embeddings (openprotein.OpenProtein property) EmbeddingsAPI (class in openprotein.embeddings) EmbeddingsGenerateFuture (class in openprotein.embeddings) EmbeddingsResultFuture (class in openprotein.embeddings) EmbeddingsScoreFuture (class in openprotein.embeddings) ensemble() (openprotein.predictor.PredictorAPI method) esm1b (openprotein.embeddings.EmbeddingsAPI attribute) esm1b_t33_650M_UR50S (openprotein.embeddings.EmbeddingsAPI attribute) esm1v (openprotein.embeddings.EmbeddingsAPI attribute) esm1v_t33_650M_UR90S_1 (openprotein.embeddings.EmbeddingsAPI attribute) esm1v_t33_650M_UR90S_2 (openprotein.embeddings.EmbeddingsAPI attribute) esm1v_t33_650M_UR90S_3 (openprotein.embeddings.EmbeddingsAPI attribute) esm1v_t33_650M_UR90S_4 (openprotein.embeddings.EmbeddingsAPI attribute) esm1v_t33_650M_UR90S_5 (openprotein.embeddings.EmbeddingsAPI attribute) esm2 (openprotein.embeddings.EmbeddingsAPI attribute) esm2_t12_35M_UR50D (openprotein.embeddings.EmbeddingsAPI attribute) esm2_t30_150M_UR50D (openprotein.embeddings.EmbeddingsAPI attribute) esm2_t33_650M_UR50D (openprotein.embeddings.EmbeddingsAPI attribute) esm2_t36_3B_UR50D (openprotein.embeddings.EmbeddingsAPI attribute) esm2_t6_8M_UR50D (openprotein.embeddings.EmbeddingsAPI attribute) esmfold (openprotein.fold.FoldAPI attribute) ESMFoldModel (class in openprotein.fold) ESMModel (class in openprotein.embeddings) F fit_gp() (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) (openprotein.embeddings.SVDModel method) (openprotein.predictor.PredictorAPI method) fit_svd() (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) fit_umap() (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) (openprotein.embeddings.SVDModel method) fold (openprotein.OpenProtein property) fold() (openprotein.fold.AlphaFold2Model method) (openprotein.fold.ESMFoldModel method) FoldAPI (class in openprotein.fold) FoldResultFuture (class in openprotein.fold) G generate() (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) get() (openprotein.align.MSAFuture method), [1] (openprotein.data.DataAPI method) (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.embeddings.SVDModel method) (openprotein.embeddings.UMAPModel method) (openprotein.fold.FoldResultFuture method) (openprotein.predictor.PredictorModel method) get_assay() (openprotein.design.DesignFuture method) (openprotein.predictor.PredictorModel method) get_design() (openprotein.design.DesignAPI method) get_first() (openprotein.data.AssayDataset method) get_input() (openprotein.align.MSAFuture method) get_inputs() (openprotein.embeddings.SVDModel method) (openprotein.embeddings.UMAPModel method) get_item() (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.fold.FoldResultFuture method) get_metadata() (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) (openprotein.fold.AlphaFold2Model method) (openprotein.fold.ESMFoldModel method) get_model() (openprotein.embeddings.EmbeddingsAPI method) (openprotein.embeddings.OpenProteinModel class method) (openprotein.embeddings.SVDModel method) (openprotein.embeddings.UMAPModel method) (openprotein.fold.ESMFoldModel class method) (openprotein.fold.FoldAPI method) (openprotein.predictor.PredictorModel method) get_msa() (openprotein.align.AlignAPI method) get_predictor() (openprotein.predictor.PredictorAPI method) get_prompt() (openprotein.align.AlignAPI method) get_results() (openprotein.fold.FoldAPI method) get_seed() (openprotein.align.AlignAPI method) (openprotein.align.MSAFuture method) get_slice() (openprotein.data.AssayDataset method) I id (openprotein.design.DesignFuture property) (openprotein.fold.FoldResultFuture property) (openprotein.predictor.PredictorModel property) J job (openprotein.align.MSAFuture attribute) jobs (openprotein.OpenProtein property) L list() (openprotein.data.DataAPI method) list_designs() (openprotein.design.DesignAPI method) list_models() (openprotein.data.AssayDataset method) (openprotein.embeddings.EmbeddingsAPI method) (openprotein.fold.FoldAPI method) list_predictors() (openprotein.predictor.PredictorAPI method) load_assay() (openprotein.data.DataAPI method) login() (openprotein.APISession method) logits() (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) M mafft() (openprotein.align.AlignAPI method) mafft_file() (openprotein.align.AlignAPI method) metadata (openprotein.design.DesignFuture property) (openprotein.embeddings.OpenProteinModel property) (openprotein.fold.ESMFoldModel property) (openprotein.predictor.PredictorModel property) model (openprotein.predictor.PredictorModel property) model_id (openprotein.embeddings.OpenProteinModel attribute) (openprotein.fold.ESMFoldModel attribute) MSAFuture (class in openprotein.align) mutation_average_mutations_per_seq (openprotein.design.DesignFuture property) N n_offsprings (openprotein.design.DesignFuture property) num_rows (openprotein.design.DesignFuture property) num_steps (openprotein.design.DesignFuture property) O OpenProtein (class in openprotein) OpenProteinModel (class in openprotein.embeddings) P page_size (openprotein.align.MSAFuture attribute) poet (openprotein.embeddings.EmbeddingsAPI attribute) poet2 (openprotein.embeddings.EmbeddingsAPI attribute) PoET2Model (class in openprotein.embeddings) poet_2 (openprotein.embeddings.EmbeddingsAPI attribute) PoETModel (class in openprotein.embeddings) pop_size (openprotein.design.DesignFuture property) post() (openprotein.APISession method) predict() (openprotein.predictor.PredictorModel method) predictor (openprotein.OpenProtein property) PredictorAPI (class in openprotein.predictor) PredictorModel (class in openprotein.predictor) prompt (openprotein.OpenProtein property) prot_seq (openprotein.embeddings.EmbeddingsAPI attribute) R reduction (openprotein.predictor.PredictorModel property) refresh() (openprotein.align.MSAFuture method) (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.embeddings.SVDModel method) (openprotein.embeddings.UMAPModel method) (openprotein.fold.FoldResultFuture method) rotaprot_large_uniref50w (openprotein.embeddings.EmbeddingsAPI attribute) rotaprot_large_uniref90_ft (openprotein.embeddings.EmbeddingsAPI attribute) S sample_prompt() (openprotein.align.MSAFuture method) score() (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) sequence_length (openprotein.predictor.PredictorModel property) sequences (openprotein.fold.FoldResultFuture property) session (openprotein.align.MSAFuture attribute) single_site() (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) (openprotein.predictor.PredictorModel method) stream() (openprotein.design.DesignFuture method) (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.fold.FoldResultFuture method) svd (openprotein.OpenProtein property) SVDModel (class in openprotein.embeddings) T training_assay (openprotein.predictor.PredictorModel property) training_properties (openprotein.predictor.PredictorModel property) U umap (openprotein.OpenProtein property) UMAPModel (class in openprotein.embeddings) update() (openprotein.data.AssayDataset method) upload_msa() (openprotein.align.AlignAPI method) upload_prompt() (openprotein.align.AlignAPI method) W wait() (openprotein.align.MSAFuture method) (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.embeddings.SVDModel method) (openprotein.embeddings.UMAPModel method) (openprotein.fold.FoldResultFuture method) wait_until_done() (openprotein.align.MSAFuture method) (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.embeddings.SVDModel method) (openprotein.embeddings.UMAPModel method) (openprotein.fold.FoldResultFuture method)