Closed gouthamr321 closed 2 months ago
Hey @gouthamr321
To avoid splitting you need to filter intermediate nodes, as you did with minimum_frontier
, you can increase it to any value below 1 and maintain your labels. Be sure that no cells size are exceeding the max_area
parameter and that track(sigma=None)
.
If with these changes you're still getting splits there must be a bug and we will fix it.
To decrease the amount of disappearing cells you have to bring the tracking_config
weights closer to zero, so they are not penalized for not finding a reliable pair.
Hi,
Just wanted to confirm that raising the minimum_frontier helped fixed this issue. Thank you!
Hello again,
I am only using a single candidate segmentation and only passing in the cell masks(no raw images) and am noticing there is a lot of cell splitting and also some missing segmentations.....
I have below the original instance segmentation on top and then the tracking output below for that timepoint
I am using the following parameters below:
config.segmentation_config.min_frontier = 0.35 # increase this to get less split cells? config.linking_config.max_neighbors = 5 config.linking_config.max_distance = 50
config.tracking_config.appear_weight = -1.0 config.tracking_config.disappear_weight = -1.0 config.tracking_config.division_weight -0.1
config.tracking_config.window_size = 15 config.tracking_config.overlap_size = 3 config.tracking_config.solution_gap = 0.01
Any suggestion on parameters that I should play around with?