rnaglib.data_loading

Tools for loading and creating collections of RNAs.

RNA Dataset

This is the main object used for holding collections of RNAs. The RNAdataset object draws from a database.

RNADataset([rnas, dataset_path, ...])

This class is the main object to hold the core RNA data annotations.

Loading

Tools for loading RNAs stored in an RNADataset batch-wise for deep learning models.

Collater(dataset)	Wrapper for collate function, so we can use different node similarities.
get_loader(dataset[, batch_size, ...])	Fetch a loader object for a given dataset.
get_inference_loader(list_to_predict[, ...])	This is to just make an inference over a list of graphs.
EdgeLoaderGenerator(graph_loader[, ...])	This turns a graph dataloader or dataset into an edge data loader generator.
DefaultBasePairLoader([dataset, data_path, ...])	Dataloader that yields base pairs