pseudotimevisualize {SEPA} | R Documentation |
Visualize Gene Expression Pattern for Pseudo Temporal Cell Ordering
pseudotimevisualize(pattern, gene, showtrue = F)
pattern |
The exact output of the pseudotimepattern function. |
gene |
A character value or vector of gene names. Should be included in the gene expression matrix. |
showtrue |
For the heatmap of multiple gene, whether to display true gene expression values or fitted gene expression values. |
Visualize gene expression pattern of one or multiple genes for pseudo temporal cell ordering. For one gene, a scatterplot with fitted lines will be generated. For multiple genes, a heatmap with fitted or true expression values will be generated.
A ggplot2 object
Zhicheng Ji, Hongkai Ji <zji4@zji4.edu>
data(HSMMdata) pattern <- pseudotimepattern(HSMMdata,pseudotime) pseudotimevisualize(pattern,"ENSG00000108821.9") pseudotimevisualize(pattern,c("ENSG00000108821.9","ENSG00000187193.8"))