switchplot: Plot gene behaviour

In switchde: Switch-like differential expression across single-cell trajectories

Description

Plot gene behaviour and MLE sigmoid as a function of pseudotime.

Usage

switchplot(x, pseudotime, pars)

Arguments

x	Gene expression vector
pseudotime	Pseudotime vector (of same length as x)
pars	Fitted model parameters

Details

This plots expression of a single gene. Fitted model parameters can either be specified manually or can be extracted from the data.frame returned by switchde using the function extract_pars.

Value

A ggplot2 plot of gene expression and MLE sigmoid

Examples

data(synth_gex)
data(ex_pseudotime)
sde <- switchde(synth_gex, ex_pseudotime)
switchplot(synth_gex[1, ], ex_pseudotime, extract_pars(sde, "Gene1"))

Example output

Input gene-by-cell matrix: 12 genes and  100 cells

switchde documentation built on Nov. 8, 2020, 5:19 p.m.