Entering edit mode
4.9 years ago
prameelaawale
•
0
Hello everyone: I am new in using DEseq2. I am trying to analyze differential expression data using a publicly available data for my final project. It consists of 3 replications of control and three replications for treatment. I am trying to compare differential gene expression between treatment and control but i am getting error message which i do not know who to fix. Here is my code. Please help me fix the problem. Codes:
countdata<-read.csv("final project.csv",header = T,row.names=1)
groups<-c("control","control","control","treatment","treatment","treatment")
coldata<-data.frame(row.names=colnames(countdata),groups)
dds = DESeqDataSetFromMatrix(countData=countdata,
colData=colData,
design=~groups)
dds = DESeq(dds)
nrow(dds)
Error mesage:> dds = DESeqDataSetFromMatrix(countData=countdata,
+ colData=colData,
+ design=~groups)
Error in `rownames<-`(`*tmp*`, value = colnames(countData)) :
attempt to set 'rownames' on an object with no dimensions
Thank you in advance.
Come on. Give people something they can work with. Tell us what head countdata looks like, at least.