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pipeline:window:cryolo:picking [2019/09/16 16:59] twagner |
pipeline:window:cryolo:picking [2019/09/17 08:35] twagner |
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+ | Select the action prediction and fill all arguments in the //" | ||
{{ : | {{ : | ||
- | You can now use the model weights file (//e.g. '' | + | <note tip> |
+ | In crYOLO, all particles have a assigned confidence value. By default, all particle with confidence value below 0.3 are discarded. If you want to pick less conservatively or more conservatively you might want to change this confidence threshold to a less conservative value like 0.2 or more conservative value like 0.4 in the //" | ||
+ | However, it is much easier to select the best threshold after picking using the '' | ||
+ | </ | ||
+ | |||
+ | Press the the Start button to run the prediction. | ||
+ | |||
+ | <hidden **Run prediction from the command line**> | ||
+ | To pick all your images in the directory | ||
< | < | ||
- | cryolo_predict.py -c config.json -w cryolo_model.h5 -i full_data/ -g 0 -o boxfiles/ | + | cryolo_predict.py -c config.json -w cryolo_model.h5 -i full_data/ -g 0 -o boxfiles/ |
</ | </ | ||
You will find the picked particles in the directory '' | You will find the picked particles in the directory '' | ||
- | + | </hidden> | |
- | If you want to pick less conservatively or more conservatively you might want to change the selection threshold from the default of 0.3 to a less conservative value like 0.2 or more conservative value like 0.4 using the //-t// parameter: | + | |
- | < | + | |
- | cryolo_predict.py -c config.json -w cryolo_model.h5 -i full_data/ -g 0 -o boxfiles/ -t 0.2 | + | |
- | </code> | + | |
- | However, it is much easier to select the best threshold after picking using the '' | + |