I’ve been working on volumetric (three-dimensional) processing and analysis for a month or two and have reached a place where some features are sharable.
While a number of modules have been patched (and a few modules have been added) to the master branch and nightly builds, you’ll need to work from this branch:
to open your three-dimensional images.
A few notes:
Multi-page TIFFs are supported. While we don’t support other formats, we plan on supporting a few in the future. Alternatively, patches to support your preferred formats are encouraged!
It’s slow! Sometimes it’s frustratingly slow. This is due to a mixture of the complexity of the underlying algorithms, processor performance, and serial implementations. While parallel implementation work has started it’ll be a few months before this work is merged.
Support for multi-channel three-dimensional images is “iffy.” Support for time-lapse three-dimensional images is non-existent.
There’s no support for existing measurement modules. I plan on working on this over the next month or two.
Let me know what you think.
Thank @derek and his colleagues at the Allen Institute for their financial and technical support!