RA3_TrajInf: Trajectory inference based on the latent features output by...

In cuhklinlab/RA3: The R-based implementation of "A reference-guided approach for epigenetic characterization of single cells".

Description

The output of RA3 can also be implemented in trajectory inference. This function uses the extracted features from RA3 for trajectory inference by slingshot.

Usage

RA3_TrajInf(DRres_mat, cluster_assign, rand_seed = 23)

Arguments

DRres_mat	the extracted features H output by runRA3, colomns referring to cells
cluster_assign	the estimated cluster labels
rand_seed	random seed set for tsne plot, default value is set as 23

Value

A list containing following items:

tsne	matrix containing tsne representation, calculated using random seed 'rand_seed'
sds.new	A SlingshotDataSet containing curves. This contains the curves representing the estimated cell lineages.

Examples

result <- RA3_TrajInf(DRres_mat,cluster_assign,rand_seed = 23)

cuhklinlab/RA3 documentation built on March 18, 2021, 4:38 p.m.