phylovelo.embedding

Module Contents

Classes

VelocityEmbedding

Functions

paired_correlation_rows(→ numpy.array)	Calculate paired correlation
velocity_embedding(sd[, target, n_neigh])	Project velocity into embedding

paired_correlation_rows(A: numpy.array, B: numpy.array) → numpy.array

Calculate paired correlation

Args:

A: numpy.array B: numpy.array

Return:

numpy.array

class VelocityEmbedding(count, xdr, v)

rho(x)

get_neighbors(kNN)

transit_mat1(i)

transit_mat(n_process=0)

project(i)

velocity_embedding(sd: scData, target: str = 'count', n_neigh: int = None)

Project velocity into embedding

Args:

sd:

scData

target:

count or x_normed

n_neigh:

kNN pooling. Default: Ncells//3