rnaglib.dataset_transforms.StructureDistanceComputer

class rnaglib.dataset_transforms.StructureDistanceComputer(name='USalign', use_substructures=True, structures_path=None, n_jobs=-1, **kwargs)

Distance computer computing a structure-based pairwise distance between RNAs from a dataset

Parameters:

• name (str) – the name identifying the distance metric

• use_substructures (bool) – whether to filter cif files of RNAs to remove the residues which are not present in the dataset (default True)

• structures_path (Optional[Path]) – path to the directory where the structures are stored (as cif files)

• n_jobs (int) – number of jobs (for parallelization) (if set to -1, use the maximum number of cores)(default -1)

__init__(name='USalign', use_substructures=True, structures_path=None, n_jobs=-1, **kwargs)

Methods

__init__([name, use_substructures, ...])
forward(dataset)	Computes pairwise structural similarity between all pairs of RNAs with rna-align.