How to get TCGA microbiota data from TCGAbiolinks (R package)

Question

[u107311201]

As the title, I want to explore the relationship between microbiota and drug resistance events, however; I did not see any clear answer in the website. I am not familiar with the TCGAbiolinks package, I want to know if I can use it to download the 16S RNA, or any recommend package to get the microbiota data. Any one can take any example below? Thanks you!

[cpad0112]

Try human microbiome project for raw data and for transformed data (OTU), use HMP16sData package from bioconductor.

[u107311201]

Thank for your comment! I want to explore my project based on the TCGA. If I try the HMP16sData package from bioconductor, there have any opportunity to connect the TCGA data with the HMP16sData? And how?

Answer 1

[Nitin]

ftp://ftp.microbio.me/pub/cancer_microbiome_analysis/