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groupfin_null.R
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groupfin_null.R
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library("umx")
library("tidyverse")
library(MASS)
table<-read.csv("./shen_268_parcellation_networklabels.csv", header=F)
table$V2 <- as.factor(table$V2)
networks <- levels(table$V2)
#Receiving processed table
edges <- read_delim("./final_table.txt", col_names=T, delim="\t")
#Change sex to 0 or 1 ##
edges <- mutate(edges, Gender = if_else(Gender=="M", 1, 0))
#Multiply all by 100
edges[,7:dim(edges)[2]] <- edges[,7:dim(edges)[2]]*100
#Sex and age settings
edgenames <- colnames(edges[,7:((length(colnames(edges))/2)+3)])
edges$age1 = edges$age2 = edges$Age
edges$gender1 = edges$gender2 = edges$Gender
#Getting parameters
for (l in as.numeric(networks))
{
if (l >= 3){
edge_ind=c()
aux <- filter(table, V2==l)
for (j in (1:(dim(aux)[1]-1)))
{
for (k in ((j+1):dim(aux)[1]))
{
edge_ind <- c(edge_ind,paste("ROI",aux[k,1],aux[j,1],"T1", sep="_"))
}
}
n=1000
nel=10
for (i in 1:n){
selected_edges <- sample(edge_ind, size=nel, replace=F)
selDVs=gsub('.{1}$','',selected_edges)
tmp = umx_residualize(selDVs, "age", suffixes = 1:2, edges)
edge_resid = suppressWarnings(umx_residualize(selDVs, "gender", suffixes = 1:2, tmp))
edge_resid$Zigosity <- sample(edge_resid$Zigosity) ##Randomize twin types (mono and di)
mzData <- as.data.frame(edge_resid[edge_resid$Zigosity=="MZ",])
dzData <- as.data.frame(edge_resid[edge_resid$Zigosity=="DZ",])
m1 = suppressMessages(umxACEv(selDVs = selDVs, sep = "", dzData = dzData, mzData = mzData))
A1 = (sum(diag(m1$output$algebras$top.A_std)))/nel
C1 = (sum(diag(m1$output$algebras$top.C_std)))/nel
E1 = (sum(diag(m1$output$algebras$top.E_std)))/nel
r <- cbind(A1,C1,E1)
print(i)
write.table(r, paste("multivariate_",l, "_null", sep=""), sep="\t", quote=F, append=T, col.names=F, row.names=F)
}
}
}