TCGA dataset normalization

TCGA dataset normalization

0

hi. i am new to machine learning. i want to normalize my data which I downloaded from UCSC Xena browser for pancreatic cancer TCGA PAAD is its id. when I try to run this code it is showing error given below

library( "DESeq2" )
library(ggplot2)
countData <- read.csv('PAAD.csv', header = TRUE, sep = ",")
head(countData)
options(max.print = 100000)
metaData <- read.csv('PAADPheno.csv', header = TRUE, sep = ",")
metaData
dds <- DESeqDataSetFromMatrix(countData=countData, 
                              colData=colData, 
                              design=~adenocarcinoma_invasion)

> dds <- DESeqDataSetFromMatrix(countData=countData, 
+                               colData=colData, 
+                               design=~adenocarcinoma_invasion)
Error in `rownames<-`(`*tmp*`, value = colnames(countData)) : 
  attempt to set 'rownames' on an object with no dimensions

please help me resolving this issue or give me the code for it.


machine


TCGA


DESeq2


learning


normalization

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