conversion of case_ids to file_ids TCGA data

Question

[nazaninhoseinkhan]

Dear all,

I need to convert case_ids of TCGA data to file_ids.

I used TCGAutils but I could not convert the IDs

Can you advice me how to do this?

Regards

Nazanin

Answer 1

[adebola.1]

Hi, where you able to find a solution to this questions as I am in the same shoe?

[nazaninhoseinkhan]

Hi Using "GenomicDataCommon" package in R, you will be able to find corresponding TCGA barcodes of the folder names. Then using "Manifest" file of your data, you will be able to find corresponding file names.

Answer 2

[adebola.1]

Thanks a lot