cellrank.tl.kernels.PrecomputedKernel

class cellrank.tl.kernels.PrecomputedKernel(transition_matrix=None, adata=None, backward=False, compute_cond_num=False)

Kernel which contains a precomputed transition matrix.

Parameters

• transition_matrix (Union[ndarray, spmatrix, KernelExpression, str, None]) – Row-normalized transition matrix or a key in adata .obsp or a cellrank.tl.kernels.KernelExpression with the computed transition matrix. If None, try to determine the key based on backward.

• adata (anndata.AnnData) – Annotated data object.

• backward (bool) – Direction of the process.

Attributes

adata	Annotated data object.
backward	Direction of the process.
condition_number	Condition number of the transition matrix.
kernels	Get the kernels of the kernel expression, except for constants.
params	Parameters which are used to compute the transition matrix.
transition_matrix	Return row-normalized transition matrix.

Methods

compute_transition_matrix(*args, **kwargs)	Return self.
copy()	Return a copy of self.
read(fname)	Deserialize self from a file.
write(fname[, ext])	Serialize self to a file.
write_to_adata([key])	Write the transition matrix and parameters used for computation to the underlying adata object.

Kernel tricks