Demo add-ons and help with Muti-session registration sought.

[smbaca]

In brief, the demos have been extremely helpful in getting us going with analyzing noisy 1P calcium imaging data from in vitro brainstem slices. Below are a couple of things that seem like they would be good to add to the demo pipeline.

1. A simple toggle to save motion corrected movies in a specified file format. This same toggle is used to save the other movies. We find them very useful in lab presentations and data blitzes. Currently the student is taking screen recordings from the notebook!
2. We often export the estimates to other programs. Is there a simple way to export the contour of each component as a binary image? For example, if we have 50 components in a 512 by 512 image, we would have an image stack of 512 by 512 by 50 to export. I was not entirely clear on how to reconstruct the contour of each component from the sparse matrix encoding.

On a more advanced level, we are sort of stumped when it comes to the multi-session registration pipeline. We have multiple sessions in slices and would like to do the following (unfortunately and because of changes in the tissue over time, we cannot do a simple concatenation of all the imaging sessions):

1. Find components/cells for each session.
2. Make a superset of all components found across all sessions but link those components that are likely the same cell.

• this would allow us to examine recruitment/drop out of cells under different conditions.

-smb