TrajectoryDataSet-class: Class 'TrajectoryDataSet'

In JuanXie19/LRT: LRT (Lineage estimation by integrative analysis of single-cell RNA-seq and TCR-seq data)

Class TrajectoryDataSet

Description

This TrajectoryDataSet class holds the inferred clonotype lineages from getOverallTrajectory.

Slots

clonotype.

A vector of clonotype that has lineages built

lineages.

A list of lineages corresponding the the clonotypes

trajectoryParams.

Additional parameters used by getOverallTrajectory. These may specify how the minimum spanning tree on clusters was constructed:

• start.clus character. The label of the root cluster, or a vector of cluster labels giving the root clusters of each disjoint component of th egraph

• end.clust character. Vector of cluster labels indicating terminal clusters.

• dist.methodcharacter. Specify the method for calculating distances between clusters

• use.medianlogical. Whether to use the median instead of mean when calculating cluster centroid coordinates. Default is 'TRUE'.

• Other parameters specified by principal_curve.

Examples

# TrajectoryDataSet objects are generated from \code{getOverallTrajectory}

JuanXie19/LRT documentation built on April 14, 2025, 7:09 p.m.