@freeman-lab Ah padding with the nearest pixel is a great solution. I have checked on my laptop and it seems to be working correctly. Unfortunately I wont be using the Imac at work until after CodeNeuro because I have broken my leg. So i wont be able to tell you what I was doing to cause the 0 padding at the edge of the images until then.
@shefali23 I think it probably would be! I don't know much about analyzing those kinds of data, but I do think there's a lot of overlap, and the binary imzML format seems pretty similar to the one Thunder's binary loader handles
using ThunderContext.loadSeries with binary data handles a single file or multiple files, and in both cases loading and subsequent processing is parallelized across the cluster