oeltoham
oeltoham
/ Pheno Filtering Final
Created
April 6, 2018 21:41
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| gset <- getGEO('GSE26253')[[1]] | |
| pset1 <- pData(gset) | |
| gset2 <- getGEO('GSE15460')[[1]] | |
| gset3 <- getGEO('GSE15460')[[2]] | |
| pset2 <- pData(gset2) | |
| pset3 <- pData(gset3) | |
| View(pset1) | |
| pset1_final <- pset1[,c("pathological stage:ch1", "recurrence free survival time (month):ch1", "status (0=non-recurrence, 1=recurrence):ch1")] | |
| View(pset1_final) | |
| write.csv(pset1_final, file = "GSE26253PHENOFinal.csv") |
oeltoham
/ Entrez Gene ID Mapping
Created
March 28, 2018 23:22
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| gset <- getGEO('GSE26253')[[1]] | |
| pData(gset) | |
| gset2 <- getGEO('GSE15460')[[1]] | |
| pData(gset2) | |
| write.csv(pData(gset), file = "GSE26253PHENO.csv") | |
| write.csv(pData(gset2), file = "GSE15460PHENO.csv") | |
| ## | |
| data.matrix(gset@featureData@data$Entrez_Gene_ID) | |
| data.matrix(gset@featureData@data$Probe_Id) | |
| data.matrix(gset2@featureData@data$ENTREZ_GENE_ID) |