Not all available files shown in TCGA website.
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?
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Tagging: Zhenyu Zhang
Are you sure besides experimental strategy, you didn't set other filters?
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.