Just to start, thanks for the awesome tool you’ve made!
Sadly, I myself aren’t awesome enough to get it to do what I want. This is the
I am have made fluorescent images of cell stained for
Clathrin. I am interested in the radial distribution of the small Clathrin
coated vesicles in the cell and found that CellProfiler has the ability to
measure this. I followed the directions given in this thread and used
the Speckle example pipeline to construct something for my own dataset. The
masking, segmentation, and following steps all seem to be handled nicely, but
the radial distribution step is somehow going wrong. The produced heat map
shows only the one color which is associated with the lowest value and the table
accompanying it puts all the measured points in the ‘overflow’ bin. This is
with the scaled bins on and trying to create my own bins has not yielded any
I really have the feeling I’m missing one step, but after a
few days of puzzling I am admitting defeat and ask for help.
In the attached ZIP file there is a sample image, a mask
image, and the pipeline. If anything else would be helpful, please let me know
and I’ll try to upload it asap.
RadialCV.zip (80.4 KB)
In the ‘command’ window I do see a warning popping up when running the pipeline, but I
do not know if this is something important: “Worker 0: WARNING: Unable to load
module 'vigra.fourier’ “. I’m running CP 2.2.0 on a Windows 10 64 bit machine.
Thanks in advance for any help and criticisms!