It's mostly an interface for OpenCV special make for counting cells on a picture.
To install this from the internet use pip or follow the install instructions:
$ python3 -m pip install git+git://github.com/linuxluigi/PyCellFinder.git
Use it with the default parameters:
$ pycellfinder -i path_to_your_image
The output presents the count of found objects in the image.
| usage | default value | description |
|---|---|---|
| -h, --help | show a help message and exit | |
| --version, -v | show program's version number and exit | |
| --input INPUT, -i INPUT | path to input file | |
| --output OUTPUT, -o OUTPUT | path to output file | |
| --plot PLOT, -p PLOT | set True for plot output image | |
| --threshold THRESHOLD, -t THRESHOLD | 16 | threshold level |
| --min_size MIN | min object size | |
| --max_size MAX | max object size | |
| --color COLOR | filter by color 0=Black 255=White | |
| --circularity CIRCULARITY | filter by circularity, float value between 0.0 & 1.0 | |
| --convexity CONVEXITY | filter by convexity, float value between 0.0 & 1.0 | |
| --inertia INERTIA | filter by inertia |