How to download Gene expression data and associate clinical data from TCGA

Question

[Jakpa]

Hello,

I am new to TCGA database. I have been using GEO database to get data for my analysis. Now , I am mandated to use TCGA for available data. The links below are my data of interest:

• RNA-Seq gene expression for Bladder cancer
• Gene expression data Bladder cancer

Now, I want to download the expression data as well as the associated clinical data.

I read posts on using TCGABiolinks but I could not find my way around it. It seems a lot has change recently in TCGA portal.

I need help on how to go about this using R, Python or other available Tools.

Again, is there a way to have a view of the data(clinical data) first before downloading?

Regards

[Ram]

I read posts on using TCGABiolinks but I could not find my way around it. It seems a lot has change recently in TCGA portal.

What have you tried and what are the errors you see?

[Ram]

A similar issue: GDCquery error downloading TARGET-AML data

[Jakpa]

@Ram, similar error