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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