PlotTrajectory | R Documentation |
Infer the developmental trajectories based on the clustering results from RCSL
PlotTrajectory( gfData, clustRes, TrueLabel, lineage, fontSize = 12, dataName = "", VisualMethod = "umap" )
gfData |
preprocessed gene expression data (each column represent a cell) |
clustRes |
the clustering results identified by RCSL |
TrueLabel |
the real cell types |
lineage |
the lineage obtained by getLineage() |
fontSize |
the size of font in the plot |
dataName |
the name of the data that will be showed in the plot |
VisualMethod |
the display method of 2-D visualization |
TrajectoryPlot ggplot object of the inferred developmental trajectories
gfData <- GenesFilter(yan) TrueLabel <- ann$cell_type1 res_SimS <- SimS(gfData) C <- EstClusters(res_SimS$drData,res_SimS$S) res_BDSM <- BDSM(res_SimS$S,C) Pseudo <- PlotPseudoTime(res_SimS$S,TrueLabel,startPoint=1) Linea <- getLineage(res_SimS$drData,res_BDSM$y,Pseudo$pseudoTime) PlotTrajectory(gfData,res_BDSM$y,TrueLabel,lineage=Linea)
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