Its public data I'm looking at. I have the sra files so in principle I could convert these to fastq and realign them, but 1) that not exactly the same as the data used in the publication and 2) they provide their processed data at tdf files. I get supporting a legacy format, but this is recent data so I have no idea why the default file for outputting tracks like this wouldn't be a more widely supported format.
Anyway, all I really need is to be able to convert them. So, how exactly do I do that?