FPKM to HTseq

Question

[Ali]

Hi everyone I using GDC-TCGA data to training in the SVM model. For the testing set Use GEO data. The problem is GDC-TCGA was HT-seq and GEO FPKM. is there any formula or any conversion tool to convert from FPKM to counts ????

Kind regards

[Zhenyu Zhang]

I am pretty sure you can also get HT-Seq FPKM data from GDC. Of coz, the two FPKM method may not be exactly the same

Answer 1

[ATpoint]

No, unless you have exact code and the gene length they used to exactly reverse the operations. GEO datasets should contain raw data which you can download, see e.g. sra-explorer.info

[Ali]

Thanks for your reply I will check it

regards