Currently, if one is working with multiple channels, the cells in each channel must be segmented by changing the fluorescence channel and segmenting one channel at a time.
This quickly becomes very tedious.
Would it be possible to simply choose the segmentation parameters for each channel in the same window (without having to use the drop-down menu) and then perhaps implement a button to segment both channels at the same time?
The current button (segment cells) intuitively suggests (to me, at least) that the entire image is being segmented with the current parameters. This also leads to some confusion, when one channel has been segmented while the other has not, without any way of knowing other than changing channel (in a different drop-down menu) and loading the segmentation results.
If the multichannel segmentation is not possible, could the two fluorescence channel dropdowns (image preview and segmentation) at least be interlocked? I don’t have any experience with GUI design in Matlab, so I don’t know how many hoops you have to jump to connect elements between panels.
A different idea perhaps, could be a panel to see if the segmentation files have been created (or maybe, which files have been created at all).