Relevance or Dependency network and signaling pathway discovery


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Documentation for package `GeneNT' version 1.2

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BEST.kendall BLAST type search for similar co-expressions with controlled FDR and MAS using Kendall correlation statistic
BEST.pearson BLAST type search for similar co-expressions with controlled FDR and MAS using Pearson correlation statistic
cor.confint Asymptotic confidence intervals of Pearson correlation coefficient
corfdrci Two-stage screening procedure for screening gene pairs based on Pearson correlation statistic
corfdrci.inv Inverse screening procedure based on Pearson correlation coefficient
dat Part of galactose metabolism data. Ideker et al. Science, 292:929-934
getBM Generate Pajek compatible matrix from screened gene pairs
kendall.confint Asymptotic confidence intervals of Pearson correlation coefficient
kendallfdrci Two-stage screening procedure based on Kendall correlation coefficient
pcor.confint Asymptotic confidence intervals of partial correlation coefficient
pcorfdrci Two-stage screening procedure based on partial correlation coefficient in Graphic Gaussian Model framework
pcorfdrci.inv Inverse screening procedure based on Kendall correlation coefficient
priorclust Regular "prior" clustering
sm.name Extract gene names from data matrix
spclust Network constrained "posterior" clustering