getLineage: Infer the development lineage based on the clustering results...
In RCSL: Rank Constrained Similarity Learning for Single Cell RNA Sequencing Data

Description Usage Arguments Value Examples

Infer the development lineage based on the clustering results from RCSL and the pseudotime

1	getLineage(drData, clustRes, pseudoTime, simMeasure = "kendall")

`drData`	preprocessed gene expression data (each column represent a cell)
`clustRes`	the clustering results identified by RCSL
`pseudoTime`	inferred by PlotPseudoTime() using the similarity matrix S and starting cell
`simMeasure`	the calculation method of measuring the cluster centers' similarity

lineage the cell lineages connected all the cluster centers based on the clustering results from RCSL

gfData <- GenesFilter(yan[1:100,1:15])
TrueLabel <- ann$cell_type1[1:15]
res_SimS <- SimS(gfData)
C <- EstClusters(res_SimS$drData,res_SimS$S)
res_BDSM <- BDSM(res_SimS$S,C)
Pseudo <- PlotPseudoTime(res_SimS$S,TrueLabel,startPoint=1)
getLineage(res_SimS$drData,res_BDSM$y,Pseudo$pseudoTime)