I am struggling to complete a simple task using TCGA related packages.
I would need to obtain a manifest with all TGCA sample IDs (normal and primary tumor) and patient IDs which satisfy the following conditions:
Whole exome sequencing + DNA methlation profile (450k) + Gene expression profile (RNA-seq)
Is it possible to submit a comprehensive query for such a request, without going through a series of single manifests, filtering and merging?
Moreover, the usage of case UUID and their relationship with TCGA barcodes adopted in the past is still a little bit tricky for me, so if anyone can point me a good resource to get to know this detail better it would be great.
Thank you for your attention and help,