Relevance or Dependency network and signaling pathway discovery


[Package List] [Top]

Documentation for package `GeneNT' version 1.3

Help Pages

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
cor.rep Estimating gene expression correlation from replicated microarray data
cor.rep.bootci Bootstrap Confidence Interval for multivariate correlation estimator from replicated gene microarray data
cor.rep.pv Multivariate correlation estimator from replicated gene microarray data
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
ncclust Network constrained clustering
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
sm.name Extract gene names from data matrix
tdclust Traditional clustering