I submitted a similar topic a couple of weeks ago - on how to build a single pyramidal representation of several small images, all of which belonged originally to the same microscope slide. The reason why I want to do this is that I would like to be able to generate now my own “microscope slide format” (any of the BioFormats format would do) with a mask or something similar.
So, right now, my main concern is the following - if I want to do this without any intermediate files (a single pipeline that would go from an initial point with an initial slide image, process it with whatever methodology is necessary, to the final point with the processed and final slide image), what is the best way to do this, from the “nitty-gritty” aspect (i.e. the “lower” level approach - “high level” approach-answers are also appreciated)? If writing these intermediate files is necessary that would be fine, but I would still appreciate to know how to then go from them to the large pyramidal representation.
I am working mostly in Python, but I would appreciate answers to this topic on both a more general and language-specific level.
I now this is a bit of a complicated question (at least I am struggling to find an answer), but hopefully someone out there will have some info on it
EDIT: to make it as clear as possible: if there is no tool available for this, any form of guidelines on how to do it are greatly appreciated