How to get full list of TCGA patients with mutation data

Question

[heochin59]

I have downloaded the TCGA mutation data (MAF files) via the TCGAbiolinks package in R. The file I downloaded only show the list of patients with a gene mutations, and the patients do not have mutations will not show up in the file. I downloaded the clinical file to get a list of all the patients to know which one did not show up in the mutation file. However, I notice that there are patients that aren't in the mutation file because there is no sequencing data of that patients. So how can I get a list of patients that have mutation data available?

Thank you so much for your help!

Answer 1

[Zhenyu Zhang]

Go to GDC Cohort Builder, filter for TCGA and MAF