TCGA STAR count

Question

[Rob]

Hi, all I want to download the TCGA-KIRC RNAseq using the following code. But I cannot get the data and instead I get error.

this is the code:

query <- GDCquery(
    project = "TCGA-KIRC",
    data.category = "Transcriptome Profiling",
    data.type = "Gene Expression Quantification",
    sample.type = "Primary Tumor",
    workflow.type = "STAR - Counts"
)

GDCdownload(query, method = "api")
rnaseq <- GDCprepare(query)  ##Here is the line causing error
rna_STAR_count <- as.data.frame(rnaseq@assays@data@listData)

this is the error :

Error in `fn()`:
! Join columns must be present in data.
x Problem with `#gene`.
Run `rlang::last_error()` to see where the error occurred.
There were 50 or more warnings (use warnings() to see the first 50)

it will be nice if anyone can help me with this.