multi-omic-urothelial-anti-pdl1

multi-omic-urothelial-anti-pdl1 copied to clipboard

Hi, I'm using the **bladder-deseq.R** script and I'm stuck in this step: `deseq_results = results(dds, contrast=c("is_benefit", "True", "False"))` because it reports this error: ``` Error in if (!expanded & (hasIntercept...

ge2sasag

RNA seq raw data

4

Hello Could you inform me if the raw RNA seq data used in this analysis are publicly available for download somewhere? Thanks, Guillaume

gsiegwald

question about your data

1

Is your file,“multi-omic-urothelial-anti-pdl1/analyses/bladder-kallisto-tximport.csv” representative gene expression matrix on each sample ? And is it processed by RNA-seq?

zhangyonglzg

Genentech ID mismatch

1

For those not using the provided python code to load the data, note that the file `tcga_subtypes_id_map.csv` maps a genentech ID to a patient ID of 2397, even though that...

jlkravitz