Index A | B | C | D | E | F | G | I | J | L | M | N | O | P | Q | R | S | T | U | W A abnumber() (openprotein.align.AlignAPI method) abnumber_file() (openprotein.align.AlignAPI method) af2 (openprotein.fold.FoldAPI attribute) affinity (openprotein.fold.FoldComplexResultFuture 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) AssayMetadata (class in openprotein.data) attn() (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) B boltz1 (openprotein.fold.FoldAPI attribute) Boltz1Model (class in openprotein.fold) boltz1x (openprotein.fold.FoldAPI attribute) Boltz1xModel (class in openprotein.fold) boltz2 (openprotein.fold.FoldAPI attribute) Boltz2Model (class in openprotein.fold) boltz_1 (openprotein.fold.FoldAPI attribute) boltz_1x (openprotein.fold.FoldAPI attribute) boltz_2 (openprotein.fold.FoldAPI attribute) C cancelled() (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.fold.FoldComplexResultFuture method) (openprotein.fold.FoldResultFuture method) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture method) (openprotein.prompt.Prompt method) (openprotein.svd.SVDEmbeddingsResultFuture method) (openprotein.umap.UMAPEmbeddingsResultFuture method) clustalo() (openprotein.align.AlignAPI method) clustalo_file() (openprotein.align.AlignAPI method) confidence (openprotein.fold.FoldComplexResultFuture property) 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.FoldResultFuture class method) create_genetic_algorithm_design() (openprotein.design.DesignAPI method) create_msa() (openprotein.align.AlignAPI method) create_prompt() (openprotein.prompt.PromptAPI method) create_query() (openprotein.prompt.PromptAPI method) created_date (openprotein.embeddings.EmbeddingsGenerateFuture property) (openprotein.embeddings.EmbeddingsResultFuture property) (openprotein.embeddings.EmbeddingsScoreFuture property) (openprotein.fold.FoldComplexResultFuture property) (openprotein.fold.FoldResultFuture property) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture property) (openprotein.prompt.Prompt property) (openprotein.svd.SVDEmbeddingsResultFuture property) (openprotein.umap.UMAPEmbeddingsResultFuture property) 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.predictor.PredictorModel method) (openprotein.svd.SVDModel method) (openprotein.umap.UMAPModel method) delete_predictor() (openprotein.predictor.PredictorAPI method) design (openprotein.OpenProtein property) DesignAPI (class in openprotein.design) DesignFuture (class in openprotein.design) dnas (openprotein.fold.FoldComplexResultFuture property) done() (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.fold.FoldComplexResultFuture method) (openprotein.fold.FoldResultFuture method) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture method) (openprotein.prompt.Prompt method) (openprotein.svd.SVDEmbeddingsResultFuture method) (openprotein.umap.UMAPEmbeddingsResultFuture method) E embed() (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) (openprotein.svd.SVDModel method) (openprotein.umap.UMAPModel method) embedding (openprotein.OpenProtein property) EmbeddingModel (class in openprotein.embeddings) embeddings (openprotein.OpenProtein property) (openprotein.umap.UMAPModel property) EmbeddingsAPI (class in openprotein.embeddings) EmbeddingsGenerateFuture (class in openprotein.embeddings) EmbeddingsResultFuture (class in openprotein.embeddings) EmbeddingsScoreFuture (class in openprotein.embeddings) end_date (openprotein.embeddings.EmbeddingsGenerateFuture property) (openprotein.embeddings.EmbeddingsResultFuture property) (openprotein.embeddings.EmbeddingsScoreFuture property) (openprotein.fold.FoldComplexResultFuture property) (openprotein.fold.FoldResultFuture property) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture property) (openprotein.prompt.Prompt property) (openprotein.svd.SVDEmbeddingsResultFuture property) (openprotein.umap.UMAPEmbeddingsResultFuture property) ensemble() (openprotein.predictor.PredictorAPI method) esm1b (openprotein.embeddings.EmbeddingsAPI attribute) esm1v (openprotein.embeddings.EmbeddingsAPI attribute) esm2 (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.predictor.PredictorAPI method) (openprotein.svd.SVDModel method) fit_svd() (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) (openprotein.svd.SVDAPI method) fit_umap() (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) (openprotein.svd.SVDModel method) (openprotein.umap.UMAPAPI method) fold (openprotein.OpenProtein property) fold() (openprotein.fold.AlphaFold2Model method) (openprotein.fold.Boltz1Model method) (openprotein.fold.Boltz1xModel method) (openprotein.fold.Boltz2Model method) (openprotein.fold.ESMFoldModel method) FoldAPI (class in openprotein.fold) FoldComplexResultFuture (class in openprotein.fold) FoldResultFuture (class in openprotein.fold) Future (class in openprotein.jobs) G generate() (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) (openprotein.models.foundation.rfdiffusion.RFdiffusionModel method) get() (openprotein.align.MSAFuture method) (openprotein.data.DataAPI method) (openprotein.design.DesignFuture method) (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.fold.FoldComplexResultFuture method) (openprotein.fold.FoldResultFuture method) (openprotein.jobs.Future method) (openprotein.jobs.JobsAPI method) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture method) (openprotein.predictor.PredictorModel method) (openprotein.prompt.Prompt method) (openprotein.svd.SVDEmbeddingsResultFuture method) (openprotein.svd.SVDModel method) (openprotein.umap.UMAPEmbeddingsResultFuture method) (openprotein.umap.UMAPModel method) get_assay() (openprotein.design.DesignFuture method) (openprotein.predictor.PredictorModel method) get_design() (openprotein.design.DesignAPI method) get_first() (openprotein.data.AssayDataset method) get_inputs() (openprotein.svd.SVDModel method) (openprotein.umap.UMAPModel method) get_item() (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.fold.FoldResultFuture method) (openprotein.svd.SVDEmbeddingsResultFuture method) (openprotein.umap.UMAPEmbeddingsResultFuture method) get_metadata() (openprotein.embeddings.ESMModel method) (openprotein.embeddings.OpenProteinModel method) (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) (openprotein.models.foundation.rfdiffusion.RFdiffusionModel method) get_model() (openprotein.embeddings.EmbeddingsAPI method) (openprotein.embeddings.ESMModel class method) (openprotein.embeddings.OpenProteinModel class method) (openprotein.embeddings.PoET2Model class method) (openprotein.embeddings.PoETModel class method) (openprotein.fold.FoldAPI method) (openprotein.predictor.PredictorModel method) get_msa() (openprotein.align.AlignAPI method) get_pdb() (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture method) get_predictor() (openprotein.predictor.PredictorAPI method) get_prompt() (openprotein.align.AlignAPI method) (openprotein.prompt.PromptAPI method) get_query() (openprotein.prompt.PromptAPI method) get_results() (openprotein.fold.FoldAPI method) get_seed() (openprotein.align.AlignAPI method) get_slice() (openprotein.data.AssayDataset method) get_svd() (openprotein.svd.SVDAPI method) get_umap() (openprotein.umap.UMAPAPI method) I id (openprotein.design.DesignFuture property) (openprotein.embeddings.EmbeddingsGenerateFuture property) (openprotein.embeddings.EmbeddingsResultFuture property) (openprotein.embeddings.EmbeddingsScoreFuture property) (openprotein.fold.FoldComplexResultFuture property) (openprotein.fold.FoldResultFuture property) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture property) (openprotein.predictor.PredictorModel property) (openprotein.prompt.Prompt property) (openprotein.svd.SVDEmbeddingsResultFuture property) (openprotein.svd.SVDModel property) (openprotein.umap.UMAPEmbeddingsResultFuture property) (openprotein.umap.UMAPModel property) indel() (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) J Job (class in openprotein.jobs) job (openprotein.fold.FoldComplexResultFuture attribute) (openprotein.fold.FoldResultFuture attribute) job_id (openprotein.embeddings.EmbeddingsGenerateFuture property) (openprotein.embeddings.EmbeddingsResultFuture property) (openprotein.embeddings.EmbeddingsScoreFuture property) (openprotein.fold.FoldComplexResultFuture property) (openprotein.fold.FoldResultFuture property) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture property) (openprotein.prompt.Prompt property) (openprotein.svd.SVDEmbeddingsResultFuture property) (openprotein.umap.UMAPEmbeddingsResultFuture property) job_type (openprotein.embeddings.EmbeddingsGenerateFuture property) (openprotein.embeddings.EmbeddingsResultFuture property) (openprotein.embeddings.EmbeddingsScoreFuture property) (openprotein.fold.FoldComplexResultFuture property) (openprotein.fold.FoldResultFuture property) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture property) (openprotein.prompt.Prompt property) (openprotein.svd.SVDEmbeddingsResultFuture property) (openprotein.umap.UMAPEmbeddingsResultFuture property) jobs (openprotein.OpenProtein property) JobsAPI (class in openprotein.jobs) L ligands (openprotein.fold.FoldComplexResultFuture property) list() (openprotein.data.DataAPI method) (openprotein.jobs.JobsAPI 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) list_prompts() (openprotein.prompt.PromptAPI method) list_svd() (openprotein.svd.SVDAPI method) list_umap() (openprotein.umap.UMAPAPI 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.ESMModel property) (openprotein.embeddings.OpenProteinModel property) (openprotein.embeddings.PoET2Model property) (openprotein.embeddings.PoETModel property) (openprotein.predictor.PredictorModel property) (openprotein.svd.SVDModel property) (openprotein.umap.UMAPModel property) min_dist (openprotein.umap.UMAPModel property) model (openprotein.predictor.PredictorModel property) (openprotein.svd.SVDModel property) (openprotein.umap.UMAPModel property) model_id (openprotein.fold.ESMFoldModel attribute) (openprotein.fold.FoldComplexResultFuture property) (openprotein.fold.FoldResultFuture property) models (openprotein.OpenProtein property) ModelsAPI (class in openprotein.models) msa_id (openprotein.prompt.PromptJob property) MSAFuture (class in openprotein.align) mutation_average_mutations_per_seq (openprotein.design.DesignFuture property) N n_components (openprotein.svd.SVDModel property) (openprotein.umap.UMAPModel property) n_neighbors (openprotein.umap.UMAPModel property) 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 pae (openprotein.fold.FoldComplexResultFuture property) pde (openprotein.fold.FoldComplexResultFuture property) plddt (openprotein.fold.FoldComplexResultFuture property) poet (openprotein.embeddings.EmbeddingsAPI attribute) poet2 (openprotein.embeddings.EmbeddingsAPI attribute) PoET2Model (class in openprotein.embeddings) PoETModel (class in openprotein.embeddings) pop_size (openprotein.design.DesignFuture property) post() (openprotein.APISession method) predict() (openprotein.models.foundation.rfdiffusion.RFdiffusionModel method) (openprotein.predictor.PredictorModel method) predictor (openprotein.OpenProtein property) PredictorAPI (class in openprotein.predictor) PredictorModel (class in openprotein.predictor) progress_counter (openprotein.embeddings.EmbeddingsGenerateFuture property) (openprotein.embeddings.EmbeddingsResultFuture property) (openprotein.embeddings.EmbeddingsScoreFuture property) (openprotein.fold.FoldComplexResultFuture property) (openprotein.fold.FoldResultFuture property) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture property) (openprotein.prompt.Prompt property) (openprotein.svd.SVDEmbeddingsResultFuture property) (openprotein.umap.UMAPEmbeddingsResultFuture property) Prompt (class in openprotein.prompt) prompt (openprotein.OpenProtein property) prompt_id (openprotein.prompt.PromptJob property) PromptAPI (class in openprotein.prompt) PromptJob (class in openprotein.prompt) PromptMetadata (class in openprotein.prompt) prot_seq (openprotein.embeddings.EmbeddingsAPI attribute) proteins (openprotein.fold.FoldComplexResultFuture property) Q Query (class in openprotein.prompt) QueryMetadata (class in openprotein.prompt) R reduction (openprotein.predictor.PredictorModel property) (openprotein.svd.SVDModel property) (openprotein.umap.UMAPModel property) refresh() (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.fold.FoldComplexResultFuture method) (openprotein.fold.FoldResultFuture method) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture method) (openprotein.prompt.Prompt method) (openprotein.svd.SVDEmbeddingsResultFuture method) (openprotein.umap.UMAPEmbeddingsResultFuture method) RFdiffusionFuture (class in openprotein.models.foundation.rfdiffusion) RFdiffusionModel (class in openprotein.models.foundation.rfdiffusion) rnas (openprotein.fold.FoldComplexResultFuture property) 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) (openprotein.svd.SVDModel property) (openprotein.umap.UMAPModel property) sequences (openprotein.fold.FoldResultFuture property) (openprotein.umap.UMAPModel property) single_site() (openprotein.embeddings.PoET2Model method) (openprotein.embeddings.PoETModel method) (openprotein.predictor.PredictorModel method) start_date (openprotein.embeddings.EmbeddingsGenerateFuture property) (openprotein.embeddings.EmbeddingsResultFuture property) (openprotein.embeddings.EmbeddingsScoreFuture property) (openprotein.fold.FoldComplexResultFuture property) (openprotein.fold.FoldResultFuture property) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture property) (openprotein.prompt.Prompt property) (openprotein.svd.SVDEmbeddingsResultFuture property) (openprotein.umap.UMAPEmbeddingsResultFuture property) status (openprotein.embeddings.EmbeddingsGenerateFuture property) (openprotein.embeddings.EmbeddingsResultFuture property) (openprotein.embeddings.EmbeddingsScoreFuture property) (openprotein.fold.FoldComplexResultFuture property) (openprotein.fold.FoldResultFuture property) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture property) (openprotein.prompt.Prompt property) (openprotein.svd.SVDEmbeddingsResultFuture property) (openprotein.umap.UMAPEmbeddingsResultFuture property) stream() (openprotein.design.DesignFuture method) (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.fold.FoldResultFuture method) (openprotein.svd.SVDEmbeddingsResultFuture method) (openprotein.umap.UMAPEmbeddingsResultFuture method) svd (openprotein.OpenProtein property) SVDAPI (class in openprotein.svd) SVDEmbeddingsJob (class in openprotein.svd) SVDEmbeddingsResultFuture (class in openprotein.svd) SVDFitJob (class in openprotein.svd) SVDMetadata (class in openprotein.svd) SVDModel (class in openprotein.svd), [1] T training_assay (openprotein.predictor.PredictorModel property) training_properties (openprotein.predictor.PredictorModel property) U umap (openprotein.OpenProtein property) UMAPAPI (class in openprotein.umap) UMAPEmbeddingsJob (class in openprotein.umap) UMAPEmbeddingsResultFuture (class in openprotein.umap) UMAPFitJob (class in openprotein.umap) UMAPMetadata (class in openprotein.umap) UMAPModel (class in openprotein.umap), [1] update() (openprotein.data.AssayDataset method) upload_msa() (openprotein.align.AlignAPI method) upload_prompt() (openprotein.align.AlignAPI method) W wait() (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.fold.FoldComplexResultFuture method) (openprotein.fold.FoldResultFuture method) (openprotein.jobs.Future method) (openprotein.jobs.JobsAPI method) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture method) (openprotein.prompt.Prompt method) (openprotein.svd.SVDEmbeddingsResultFuture method) (openprotein.umap.UMAPEmbeddingsResultFuture method) wait_until_done() (openprotein.embeddings.EmbeddingsGenerateFuture method) (openprotein.embeddings.EmbeddingsResultFuture method) (openprotein.embeddings.EmbeddingsScoreFuture method) (openprotein.fold.FoldComplexResultFuture method) (openprotein.fold.FoldResultFuture method) (openprotein.jobs.Future method) (openprotein.models.foundation.rfdiffusion.RFdiffusionFuture method) (openprotein.prompt.Prompt method) (openprotein.svd.SVDEmbeddingsResultFuture method) (openprotein.umap.UMAPEmbeddingsResultFuture method)