How to get TCGA microbiota data from TCGAbiolinks (R package)
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!
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Try human microbiome project for raw data and for transformed data (OTU), use HMP16sData package from bioconductor.
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?