CellSpecks

I have been working hard on making sure that events are associated with the proper channel in CellSpecks. As this is the primary task and primary challenge, this can obviously take some time. While there are a few different approaches, I think I am generally making progress.

Done with leveling the backgrounds on the channel chip! For the time being I'm going with a manual technique: specify the section you want to depict as uniform, I will make it uniform. While I was trying to avoid this manual interaction for the detection algorithm (it should be automatic, and you should be able to crop datasets without leaving the leading control), for the purpose of producing a visual reference I think it works for now.

While Dr. Demuro is working on his own manuscripts and research, I have been attempting to code for the generation of a production quality channel chip. Thus far I have successfully taken the ArrayList of detected channels and sorted the channels by open probability. I then array them in the proper channel chip orientation and voila, a channel chip is born. I haven't touched Look Up Tables yet, as ImageJ does those so well and they would take a while to code (especially if you wanted to do your own custom ones or a have a variety from which to choose).