RCSL (version 0.99.95)

SimS: Calculate the initial similarity matrix

Description

Calculate the initial similarity matrix

Usage

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
)

Arguments

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

Value

initial similarity matrix S

gene expression matrix after PCA processing drData

Examples

# NOT RUN {
gfData <- GenesFilter(yan[1:100,1:15])
res_Sims <- SimS(gfData)
res_Sims$S
res_Sims$res_pca

# }