User: silsie645

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silsie6450
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Posts by silsie645

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Comment: C: Survival analysis with gene expression
... Hi Kevin. Hope you good. I adapted your code to find the high, low and mid expressions of 14 genes. Can you please help me with a tutorial on how to conduct a pairwise survival plot possibly one that can pair say high level of TPL2 and VEGFA and low level of IGFBP3? I already tried this but I didn ...
written 1 day ago by silsie6450
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Multivariate logistic regression for gene expression
... I am working on a project where I am supposed to perform a univariate and multivariate regression analysis for some specific genes that affect cancer (14 in all). After performing the univariate analysis with: #testing each gene with the data Res1<-RegParallel(data=coxdata, formula='Sur ...
R microarray written 2 days ago by silsie6450
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Comment: C: Survival analysis with gene expression
... Hi Kevin. This may seem odd but I will like to know how R interprets: ggsurvplot(survfit(Surv(OverallSurvival_months, Death)~TPL2... and ggsurvplot(survfit(Surv(OverallSurvival_months)~TPL2... This is because when I used the second to plot a that had a p value of 0.0024 making the rela ...
written 6 days ago by silsie6450
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Comment: C: Survival analysis with gene expression
... Hi. So this is what I eventually and it seemed to work: coxdata$dfs_event<- as.numeric(as.factor(coxdata$dfs_event)) coxdata$dfs_event<-sub(2,1,coxdata$dfs_event) coxdata$dfs_event<-sub(3,0,coxdata$dfs_event) coxdata$dfs_event<-sub(1,'NA',coxdata$dfs_event) coxdata$d ...
written 7 days ago by silsie6450
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Comment: C: Survival analysis with gene expression
... Hi Kevin, I read the as.numeric(as.character(x)) converts my data from factor to character and then to numeric. So I tried this code: dfs_event<-as.numeric(as.factor(metadata$dfs_event..disease.free.survival..cancer.recurrence..ch1)) hoping that the data will be converted from character to ...
written 7 days ago by silsie6450
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Comment: C: Survival analysis with gene expression
... Hello Kevin. Sorry am quite new to R. Please what do you mean when by properly encoding my DFS variables. I also tried to execute the code above and I got this instead: > df[,grep('dfs',colnames(df))] Error in df[, grep("dfs", colnames(df))] : object of type 'closure' is not subs ...
written 7 days ago by silsie6450
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Comment: C: Survival analysis with gene expression
... num [1:177] NA NA NA NA NA NA NA NA NA NA ... ...
written 7 days ago by silsie6450
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Comment: C: Survival analysis with gene expression
... I also restarted R and re-executed the codes but I keep getting the same response. ...
written 7 days ago by silsie6450
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Comment: C: Survival analysis with gene expression
... Hey I tried that as well after seeing on a platform like this but I got the same response. Tried again this morning and got the same NA problem. ...
written 7 days ago by silsie6450
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Comment: C: Survival analysis with gene expression
... Please ignore the comma at the end of the code. ...
written 8 days ago by silsie6450

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