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pipeline:window:cryolo:picking [2020/03/13 08:50] twagner |
pipeline:window:cryolo:picking [2020/05/17 11:04] twagner |
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Select the action " | Select the action " | ||
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In crYOLO, all particles have an assigned confidence value. By default, all particles with a confidence value below 0.3 are discarded. If you want to pick less or more conservatively you might want to change this confidence threshold to a less (e.g. 0.2) or more (e.g. 0.4) conservative value in the //" | In crYOLO, all particles have an assigned confidence value. By default, all particles with a confidence value below 0.3 are discarded. If you want to pick less or more conservatively you might want to change this confidence threshold to a less (e.g. 0.2) or more (e.g. 0.4) conservative value in the //" | ||
However, it is much easier to select the best threshold after picking using the '' | However, it is much easier to select the best threshold after picking using the '' | ||
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+ | **Monitor mode** | ||
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+ | When this option is activated, crYOLO will monitor your input folder. This especially useful for automation purposes. You can stop the monitor mode by writing an empty file with the name “stop.cryolo” in the input directory. Just add --monitor in the command line or check the monitor box in in the //" | ||
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* **DISTR:** Contains the plots of confidence- and size-distribution. Moroever, it contains a machine readable text-file the summary statistics about these distributions and their raw data in separate text-files. | * **DISTR:** Contains the plots of confidence- and size-distribution. Moroever, it contains a machine readable text-file the summary statistics about these distributions and their raw data in separate text-files. | ||
- | You will find the picked particles in your specified output directory. | ||
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To pick all your images in the directory '' | To pick all your images in the directory '' | ||
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cryolo_predict.py -c config.json -w cryolo_model.h5 -i full_data/ -g 0 -o boxfiles/ -t 0.3 | cryolo_predict.py -c config.json -w cryolo_model.h5 -i full_data/ -g 0 -o boxfiles/ -t 0.3 | ||
</ | </ | ||
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You will find the picked particles in the directory '' | You will find the picked particles in the directory '' | ||
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<div style=" | <div style=" |