Any way to automate selecting the same ROI on consecutive slides (with different stainings)?

[nienketegr]

Hi,

I am working with whole tissue slides and have several slides of the same (consecutive) slides with different stainings per case. I would like to select a ROI (tumor area) and copy this to these consecutive slides of one case. The ROI has to be the same in the consecutive slides. Is there a way to automate this for several cases (with 3 slides/case) in a project?
At this moment I select the ROI on one slide myself and copy it to the others, but that is time-consuming since I have to optimize (e.g. rotate) the location of the annotations because the tissue is sometimes located on a different angle on the slides.

Thank you!

[Svidro]

Unless you can automate detection of the tumor area by texture for each (in which case you can handle every image independently anyway), I can't think of an easy way to do that with un-adjusted images within QuPath unless you already knew the X-Y shift and rotational angle change each time.

That said, there is software out there that can automatically align whole slide samples, though this can often be a time consuming process (depending on the resolution/computer speed/etc).

This thread has some additional info: https://groups.google.com/forum/#!searchin/qupath-users/slidematch%7Csort:date/qupath-users/XNdaWK_9Ex4/-w8T4cqGBAAJ
and some other recommended free software: https://groups.google.com/forum/#!searchin/qupath-users/slidematch%7Csort:date/qupath-users/VLJL6UCXqEk/c9j-RCMVBAAJ