Dear group,
i have 114 files (all have 5 columns) and variable
number of rows.
I want to read all the files and select the first
column and 4th column and fill the values into a big
matrix. I have a pre-made matrix that would have all
rownames (1st column) and coloumn names (4th column
from file to be read).
mymat <- matrix(data = 1, nrow = length(gomfs), ncol =
length(x))
rownames(tarmat)<-gomfs
colnames(tarmat)<-x
# here gomfs is a large set of rownames from the files
to be read.
# x (114 files)
for(i in x){
xa <- read.table(i,sep='\t')
a2 <- as.character(xa[,1])
a3 <- xa[,4]
nd <- data.frame(a2,a3)
tarmat[a2,i] = a3
}
What is the problem then:
The problem is a2 has ' (single quotes). So when a2
does not have singles quote, everything works fine.
But when a2 has ' - then starting from there to the
EOF all values are cluttered.
Example:
> a2[49]
[1] "mRNA guanylyltransferase activity"
> a2[50]
[1] "polynucleotide 5-phosphatase
activity\t1\t1\t0.0160650535501781\t0.0160650535501781\t0.0664390950962566\nribulose-phosphate
3-epimerase
activity\t1\t1\t0.0160650535501781\t0.0160650535501781\t0.0664390950962566\n
How can I escape the ' quote character when I read
each file. So that I do not have the problem of
clutter and my matrix is read well.
Thank you.
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