How can we make LoadImages easier to use?
I have migrated to CP from imageJ for a lot of my analysis.
In general i find the LoadImages Module straightforward and effective. It is much better than ImageJ.
I have also used the batch process function in Axiovision and Huygen’s.
Axiovision uses a “add images to batch approach” for manual image addition. Personally i find the approach in CP much more powerful.
The only trouble i had was with using the regular expressions to extract metadata
This could be perhaps simplified by allowing the user to select the parts of the filename required and giving them a field to specify a name.
Associated Image Metadata Extraction would be incredibly useful. Of course given the number of sources for images this could be difficult. However you could limit yourself to opensource acquisition platforms like micromanager. For the project i am currently working on we have written a script to extract this that separately which then has to be added to the data generated by CP.
The other feature i can think of at the moment would be support for loading and processing TIF stacks. To me this is where CP falls down against imageJ. For example i want to process a 10000 frame movie and wish to use information from previous frames to assist in the analysis of the current frame.
How can we make IdentifyPrimaryObjects easier to use?*
I think the idea of a Simple and Advanced interface is a great idea, as is the idea of having some guided interaction to aid the user in getting the appropriate settings. Particularly for seperating objects. The biggest issue I have had is in analysing a time series of cells that change in size, shape and their distance from one another overtime. Often settings that seem ideal at one timepoint are inadequate at another leading to incorrect mask identification.
I am not sure if you can do this already, but the ability to use informtation from a previous image would be useful for this sort of thing.
Also the ability to specify the number of objects. For example. There will always be 2 objects in an image.
All in all I think this a truly great platform, that can only get better.
As a quick aside is there away to extract data from the matlab file that is saved. The data i want didn’t end up in the spreadsheet, but i know it is there somewhere.