Conversion Utility from Aperio to and from caMicroscope annotations

birm commented 4 years ago

Is your feature request related to a problem? Please describe. Aperio also has a geometric annotation format, analogous to caMicroscope's "marks" (extended geoJson). It would be nice to convert between these formats.

Describe the solution you'd like The lightest touch is the best, so there's kind of a priority list for implementations. From "best" to "worst":

Using javascript in browser, not requiring a new microservice
Using wasm or similar in browser, not requring a new microservice (preferred less due to slight preference to keep a single language as possible)
Extending an existing service (maybe iip or security middleware?)
Addition of a new microservice

Additional context We can probably get a few sample annotations in aperio's format upon request.

Hemansh31 commented 4 years ago

@birm I would like to work on this. Could you provide some sample annotations in aperio's format

birm commented 4 years ago

I'll see if I can get imagescope running somewhere. In the mean time, this blog post (http://www.andrewjanowczyk.com/working-with-aperio-svs-files-in-matlab-converting-annotations-to-binary-masks/) and this gist (https://gist.github.com/DanaCase/9cfc23912fee48e437af03f97763d78e) may be somewhat informative?

camicroscope / Distro

Conversion Utility from Aperio to and from caMicroscope annotations #94