0
0
Entering edit mode
2.0 years ago
guillepalou4 ▴ 20

Hi everyone,

query <- GDCquery(project = "TCGA-THYM", data.category = "Transcriptome Profiling", data.type = "Gene Expression Quantification", workflow.type = "HTSeq - FPKM-UQ", sample.type = "Solid Tissue Normal")GDCdownload(query, method = "api", files.per.chunk = 10)



Thanks!

0
Entering edit mode

I would encourage you to post an issue on their GitHub repository. The developers do not log in here too often. Keep in mind that FPKM-UQ data is not suitable for many analyses.

0
Entering edit mode

Hi Kevin, thanks for the answer, I finally solved it. It is true that the 11 files contain RNA-seq FPKM-UQ files but although I used a "Solid normal tissue" filter, those files were from primary tumors. Weird. But at least the downloads are correct. About the last comment... Which type of analyses this type of data isn't suitable?