gravatar for rhasanvandj

8 hours ago by

Hi all

I downloaded HTSeq file but these are about 600 patients. How can I filter for primary tumors and not all patient?

I tried the following code to exclude non-primary samples but I get error. with this code I could download the data file but
when I added line: sample.type = "Primary solid Tumor"I get error

Please help me.

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

error: Error: unexpected symbol in:
" sample.type = "Primary solid Tumor"
workflow.type"



Source link