scirpy.ir_dist.metrics.DistanceCalculator

class scirpy.ir_dist.metrics.DistanceCalculator(cutoff)

Abstract base class for a CDR3-sequence distance calculator.

Parameters

cutoff : int | NoneOptional[int]: Distances > cutoff will be eliminated to make efficient use of sparse matrices. If None, the default cutoff shall be used.

Attributes

The sparse matrix dtype.

Methods

`calc_dist_mat`(seqs[, seqs2])	Calculate pairwise distance matrix of all sequences in `seqs` and `seqs2`.
`squarify`(triangular_matrix)	Mirror a triangular matrix at the diagonal to make it a square matrix.