trajResiduals: GET trajectory fitting residuals

In elldc/CellTrails: Reconstruction, visualization and analysis of branching trajectories

Description

Returns trajectory fitting residuals from SingleCellExperiment object

Usage

trajResiduals(object)

Arguments

object

A SingleCellExperiment object

Details

The trajectory fitting deviation is defined as the vector rejection from a sample in the latent space to the trajectory backbone. The trajectory backbone is defined by a tree spanning all relevant states. Samples get orthogonally projected onto straight lines connecting related states. This function quantifies the distance between the actual positon of a sample in the latent space and its projectd position on the trajectory backbone. In other words, the higher the distance, the higher its deviation (residual) from the trajectory fit. This function returns all residuals for each projected sample. Residuals of samples which were exluded for trajectory reconstruction are NA.

Value

A numeric vector

Author(s)

Daniel C. Ellwanger

See Also

fitTrajectory trajSampleNames

Examples

# Example data
data(exSCE)

trajResiduals(exSCE)[seq_len(5)]

elldc/CellTrails documentation built on May 16, 2020, 4:40 a.m.