scPlant offers convenient implementation of pseudotime trajectory inference by incorporating 4 public tools: Monolce2, Monolce3, Slingshot and CytoTRACE.
Monolce2
If save_plot = TRUE, output plots will be stored in
./output/RunMonocle2.
result <- RunMonocle2(SeuratObj, save_plot = TRUE)Monolce3
If save_plot = TRUE, output plots will be stored in
./output/RunMonocle3.
result <- RunMonocle3(SeuratObj, save_plot = TRUE)Slingshot
If save_plot = TRUE, output plots will be stored in
./output/RunSlingshot.
result <- RunSlingshot(SeuratObj, save_plot = TRUE)CytoTRACE
If save_plot = TRUE, output plots will be stored in
./output/CytoTRACEoutput.
result <- RunCytoTRACE(SeuratObj, save_plot = TRUE)