SimS | R Documentation |

Calculate the initial similarity matrix

SimS( data, pcRatio = 0.95, gamma = 0.8, NN.method = "KNN", Dis.method = "Euclidean", LSH.TreeNum = 30, LSH.Dim = 1000, LSH.Dis = "angular", neiRatio = 0.65 )

`data` |
gene expression matrix after genes filtering |

`pcRatio` |
the ratio between the variance of the |

`gamma` |
the ratio of the global simialrity |

`NN.method` |
the method of finding neighbors |

`Dis.method` |
the distance metric in finding neighbors |

`LSH.TreeNum` |
the tree number of LSH |

`LSH.Dim` |
the dimension in LSH |

`LSH.Dis` |
the distance metric in LSH |

`neiRatio` |
ratio of the number of selected |

initial similarity matrix S

gene expression matrix after PCA processing drData

gfData <- GenesFilter(yan) SimS(gfData)

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