Index

_

__getitem__() (GenotypeDataset method) __init__() (EpistasisFinder method) (EpistasisRetrievalEvaluator method) (SNPTreeParser method) (TreeParser method)

B

BatchNorm1d_BatchOnly_NLC (built-in class) BCEWithLogitsLossWithLabelSmoothing (built-in class) BinaryCohortSampler (built-in class) BlockDataset (built-in class) BlockQueryDataset (built-in class) build_arg_parser() built-in function build_config_from_args() built-in function build_hierarchical_ontology() built-in function

build_mask() (TreeParser method) built-in function build_arg_parser() build_config_from_args() build_hierarchical_ontology() correlation_matching_loss() get_param_groups() linear_temperature_schedule() main() simulate_epistasis()

C

CCCLoss (built-in class) ChunkSNP2PCollator (built-in class) CohortSampler (built-in class)

collapse() (TreeParser method) correlation_matching_loss() built-in function

D

DistributedBinaryCohortSampler (built-in class)

DistributedCohortSampler (built-in class) DynamicPhenotypeBatchSampler (built-in class)

E

EarlyStopping (built-in class) EmbeddingDataset (built-in class) EpistasisFinder (built-in class) EpistasisRetrievalEvaluator (built-in class)

evaluate() (EpistasisRetrievalEvaluator method) (SNP2PTrainer method) evaluate_binary_phenotype() (SNP2PTrainer method) evaluate_continuous_phenotype() (SNP2PTrainer method) EvaluationConfig (built-in class)

F

FiLM (built-in class) FocalLoss (built-in class)

forward() (SNP2PhenotypeModel method) from_obo() (TreeParser method)

G

GenotypeDataset (built-in class) get_individual_block_genotype() (BlockDataset method)

get_param_groups() built-in function

I

init_ontology() (TreeParser method)

init_ontology_with_snp() (SNPTreeParser method) iter_minibatches() (SNP2PTrainer method)

L

LayerNormNormedScaleOnly (built-in class)

linear_temperature_schedule() built-in function

M

main() built-in function

MoEHeadPrediction (built-in class) MultiplePhenotypeLoss (built-in class)

P

PLINKDataset (built-in class)

R

RMSNorm (built-in class)

S

sample_phenotypes() (PLINKDataset method) sample_population() (PLINKDataset method) search_epistasis_on_system() (EpistasisFinder method) select_phenotypes() (PLINKDataset method) simulate_epistasis() built-in function

SNP2PCollator (built-in class) SNP2PhenotypeModel (built-in class) SNP2PTrainer (built-in class) SNPTokenizer (built-in class) SNPTreeParser (built-in class) summary() (PLINKDataset method) (TreeParser method)

T

train() (SNP2PTrainer method) train_epoch() (SNP2PTrainer method)

TrainingEfficiencyManager (built-in class) TreeParser (built-in class) TSVDataset (built-in class)

V

VarianceLoss (built-in class)