install.packages(“glmnet”)
library(glmnet)
library(survival)
setwd(“C:\Users\TD\Desktop”)
inputfile=“id0.05exp.txt”
lncRNA<-read.table(inputfile,header=T,sep="\t",row.names = 1,check.names = F,stringsAsFactors = F)
set.seed(123456)
v1<-as.matrix(lncRNA[,c(3:ncol(lncRNA))])
v2 <- as.matrix(Surv(lncRNA
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Survival_months,lncRNA
Survivalmonths,lncRNASurvival_status))
myfit2 <- cv.glmnet(v1, v2, family=“cox”)
#pdf(“min.pdf”) #将图片写入到pdf中
plot(myfit2)
abline(v=log(c(myfit2
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lambda.min,myfit2
lambda.min,myfit2lambda.1se)),lty=“dashed”)
#dev.off() # 关闭图片，图片保存到pdf中
myfit2
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lambda.min myfit <- glmnet(v1, v2, family = "cox") coe <- coef(myfit, s = myfit2
lambda.minmyfit<−glmnet(v1,v2,family="cox")coe<−coef(myfit,s=myfit2lambda.min)
act_index <- which(coe != 0)
act_coe <- coe[act_index]
row.names(coe)[act_index]
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coe
myfit2
names(row.names(coe)[act_index])
#pdf(“lambda.pdf”) # 图片保存到pdf中
plot(myfit, xvar = “lambda”, label = TRUE)
#dev.off() #关闭图片保存
参考学习来源：https://site.douban.com/182577/widget/notes/10567212/note/289294468/