On Dec 9, 2010, at 12:44 PM, Sashi Challa wrote:
Hello All,
I have a toy dataframe like this. It has 8 columns separated by tab.
Name SampleID Al1 Al2 X Y R Th
rs191191 A1 A B 0.999 0.09 0.78 0.090
abc928291 A1 B J 0.3838 0.3839 0.028 0.888
abcnab A1 H K 0.3939 0.939 0.3939 0.77
rx82922 B1 J K 0.3838 0.393 0.393 0.00
rcn3939 B1 M O 0.000 0.000 0.000 0.77
tcn39399 B1 P I 0.393 0.393 0.393 0.56
Note that the SampleID is repeating. So I want to be able to split
the dataset based on the SampleID and write the splitted dataset of
every SampleID into a new file.
I tried split followed by lapply to do this.
infile <- read.csv("test.txt", sep="\t", as.is = TRUE, header = TRUE)
infile.split <- split(infile, infile$SampleID)
names(infile.split[1]) ## outputs “A1”
## now A1, B1 are two lists in infile.split as I understand it.
Correct me if I am wrong.
lapply(infile.split,function(x){
filename <- names(x) #### here I expect to see A1 or
B1, I didn’t, I tried (names(x)[1]) and that gave me “Name” and not
A1 or B1.
final_filename <- paste(filename,”toy_set.txt”,sep=”_”)
write.table(x, file = paste(path,
final_filename,sep=”/”, row.names=FALSE, quote=FALSE,sep=”\t”)
} )
In lapply I wanted to give a unique filename to all the split Sample
Ids, i.e. name them here as <dragged to the c() construct>.
How do I get those names, i.e. A1, B1 to a create a filename like
above.
names(file.split) <- c("A1_toy_set.txt", "B1_toy_set_txt")
When I write each of the element in the list obtained after split
into a file,
How are you proposing do do this "writing"?
the column names would have names like A1.Name, A1.SampleID, A1.Al1,
…..
Are you sure? Why would you think that?
--
David.
Can I get rid of “A1” in the column names within the lapply (other
than reading in the file again and changing the names) ?
Thanks for your time,
Regards
Sashi
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