Finding HTSeq count data for NIH datasets.

Question

[lon.lightly]

Hi, I'm new here (and in general). I hope it's not a terrible question, but I've been frustrated with trying to see if I can get the gene counts for a paper that was published on several transcriptomes: https://www.nature.com/articles/sdata201630

The best I've been able to find is this set of SRA material, but it only seems to have the original raw reads. https://trace.ncbi.nlm.nih.gov/Traces/sra/?study=SRP059260

I can download/wget the files and rerun them through a pipeline, but the work's already been done, and I don't want to endure that pain if they are readily available somewhere.

Can someone please help me navigate the NCBI links and tell me if such a thing exists already?

Thank you so much!

Answer 1

[colindaven]

This resource might meet your needs. An australian resource (Brisbane?) also exists, but I forget it's name.

https://jhubiostatistics.shinyapps.io/recount/