getProfiles: Exract lineage dependent gene expression profiles

In minzheguo/SLICE: Determining Cell Differentiation and Lineage based on Single Cell Entropy

Exract lineage dependent gene expression profiles

Description

Call after getTrajectories function to extract the gene expression profiles in each of the reconstructed cell trajectories

Usage

getProfiles(object, trajectory.type = "sp", genes.use = NULL, ...)

Arguments

object	Slice object
trajectory.type	The extract algorithm will be different depending on the type of cell trajectories: sp (shortest-path based) or pc (principal-curve based)
genes.use	If set, only the expression profiles of the specified set of genes will be extracted; otherwise, the expression profiles of all genes will be extracted

Value

updated slice object with extracted expression profiles in the "profiles" slot.

minzheguo/SLICE documentation built on June 5, 2023, 11:56 a.m.