I am using TCGAbiolinks package. I have run this code:
coadquery <- GDCquery(project = "TCGA-COAD",
data.category = "Transcriptome Profiling",
data.type ="Gene Expression Quantification",
workflow.type ="STAR - Counts", legacy = F,
experimental.strategy ="RNA-Seq")
GDCdownload(query = coadquery, method = "api")
coadprpr <- GDCprepare(coadquery, summarizedExperiment = T)
but when I run GDCprepare function it gives me error:
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Completed after 12 mError in `vectbl_as_col_location()`: ! Can't subset columns past the end. i Locations 2, 3, and 4 don't exist. i There is only 1 column. Run `rlang::last_error()` to see where the error occurred. There were 50 or more warnings (use warnings() to see the first 50)