I have a general queestion. I was wondering if it would be possible with CellProfiler to apply a segmentation based on one channel onto a series of images from a stack or movie?
Channel 1 : *C01.tif is a single image which should be used for segmentation.
Channel 2 : *C02.tif are many image of a stack or movies to be used for measurement base on the segmentation of Channel 1 (the image from Channel 2 have tags such as Z01, Z02… Z10 or T0001, T0002…T0100 for 10 z-planes or 100 frames of a movie).
I havent found a way to do that in CP so far, and I dont know who to set up the NamesAndTypes and/or Groups module to solve that problem.
Solution 1 might be for few images, like 10 z-planes, to created the 10 image in the NamesAndTypes, but that works only for a low number of image in the series.
Solution 2 that would also work for larger image series, like 100 frames, could be to duplicate the Channel 1 image and make the file name consitstent with the series (take 1 image and make a 100 copies with file tages like T0001, T0002…T0100) using some other software (FIJI, KNIME, python …). Then each image of the series would have its counter part of channel 1 for segmentation. However that is a duplication of the data.
Both work, and I did it like that already few times, but it there a better or proper way of assigning one image to a series of images?
Of cause I have dozens / hundreds of these cases (wells and fields) and my the current analysis task I have 2400 images in the series, so I am a but hesitant to do the duplication of channel 1 as a solution.
Any help or ideas on that topic is much appreciated!