I'm currently processing public datasets from my species of interest. One of my samples, which I thought was PE came back as SE after I downloaded using SRA Explorer. I thought this was weird and I double-checked in NCBI and my sample is indeed supposed to be pair-ended. I tried to download using fasterq-dump and I was able to obtain the 2 files.
(here is the sample in question)
I'm not sure if this is a bug in SRA explorer or it might just be a badly annotated submission. Can anyone explain the different results? Thanks in advance