module_Validate {miRSM} | R Documentation |
Validation of miRNA sponge interactions in each miRNA sponge module
module_Validate(Modulelist, Groundtruth)
Modulelist |
List object: a list of the identified miRNA sponge modules. |
Groundtruth |
Matrix object: a list of experimentally validated miRNA sponge interactions. |
List object: a list of validated miRNA sponge interactions in each miRNA sponge module
Junpeng Zhang (https://www.researchgate.net/profile/Junpeng_Zhang3)
data(BRCASampleData) modulegenes_WGCNA <- module_WGCNA(ceRExp, mRExp) # Identify miRNA sponge modules using sensitivity RV coefficient (SRVC) miRSM_WGCNA_SRVC <- miRSM(miRExp, ceRExp, mRExp, miRTarget, modulegenes_WGCNA, method = "SRVC", SMC.cutoff = 0.01, RV_method = "RV") miRSM_WGCNA_SRVC_genes <- miRSM_WGCNA_SRVC[[2]] library(miRspongeR) Groundtruthcsv <- system.file("extdata", "Groundtruth.csv", package="miRspongeR") Groundtruth <- read.csv(Groundtruthcsv, header=TRUE, sep=",") miRSM.Validate <- module_Validate(miRSM_WGCNA_SRVC_genes, Groundtruth)