i have a file normalized by mas5, i want to transpose that, i typed these codes but no new file was produced or no changed i saw in primary file. then where is transposed matrix please or if i did right?
And you will see how your downloaded data have been read with the readAffy() from the original gz compressed file to become a special file (rawData) that encompasses many different parts (data.frames, vector, factors, matrix) organized into a special class file (type) that includes all of the necessary information for Affy to proceed
If you want to transpose something, it has to be part of this special class file, and you need to learn how to name it or extract it
And anyway... Why do you want or need to transpose your data for ?
i want to do pearson coeficient correlation which needs a transposed matrix
i changed directory towhere my CEL files are there and typed:
Error in head(rawData) : object 'rawData' not found
Error in str(rawData) : object 'rawData' not found
did i wrong?
You have writting the following code
So after reading your data or having that file in the global environment is when you have to run the head(rawData), str(rawData) or even summarize(rawData) and class(rawData)
This will allow you to see the internal structure of this file. Then you have to learn how to find and discover where into this file is your data, and how to use it
thank you Antonio