Not all available files shown in TCGA website.

Question

[biock]

Hello!

I'm focusing on analyzing TCGA data, but I found trouble downloading files in specific format. For example, when downloading RNA-seq samples in the TCGA-BRCA project, only bedpe and tsv files are shown while all the bam files cannot be directly shown in the page. However, when clicking a sample, we will find the source files in bam files. How can I fix this issue to get a manifest file that include all the available files for a specific cancer type?

[GenoMax]

Tagging: Zhenyu Zhang

[Zhenyu Zhang]

Are you sure besides experimental strategy, you didn't set other filters?

[biock]

Thanks! Yes, I'm sure only the "Experimental Strategy" filter was selected. I finally managed to get a list of bam files by downloading the manifest file of a certain tumor type.