ti_scimitar: SCIMITAR

In dynverse/dynmethods: A collection of trajectory inference methods

SCIMITAR

Description

Will generate a trajectory using SCIMITAR.

This method was wrapped inside a container. The original code of this method is available here.

Usage

ti_scimitar(
  covariance_type = "diag",
  degree = 3L,
  step_size = 0.07,
  cov_estimator = "identity",
  cov_reg = 0.05,
  max_iter = 3L
)

Arguments

covariance_type	. Domain: diag, spherical, full. Default: diag. Format: character.
degree	. Domain: U(1, 20). Default: 3. Format: integer.
step_size	. Domain: e^U(-4.61, -2.30). Default: 0.07. Format: numeric.
cov_estimator	. Domain: identity, diag, sample, global, glasso, average. Default: identity. Format: character.
cov_reg	. Domain: e^U(-4.61, -2.30). Default: 0.05. Format: numeric.
max_iter	. Domain: U(1, 20). Default: 3. Format: integer.

Value

A TI method wrapper to be used together with infer_trajectory

References

CORDERO, P., STUART, J.M., 2016. TRACING CO-REGULATORY NETWORK DYNAMICS IN NOISY, SINGLE-CELL TRANSCRIPTOME TRAJECTORIES. Biocomputing 2017.

dynverse/dynmethods documentation built on Jan. 18, 2024, 4:44 a.m.