getLineage | R Documentation |

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

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) 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$S,TrueLabel,startPoint=1) getLineage(res_SimS$drData,res_BDSM$y,Pseudo$pseudoTime)

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