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pipeline:window:cryolo:picking_general [2019/10/11 17:10] twagner [2. Configuration] |
pipeline:window:cryolo:picking_general [2020/05/25 10:14] twagner |
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+ | <note important> | ||
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+ | **DOCUMENTATION OUTDATED** | ||
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+ | The documentation has moved to https:// | ||
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+ | </ | ||
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===== Picking particles - Without training using a general model ===== | ===== Picking particles - Without training using a general model ===== | ||
Here you can find how to apply the general models we trained for you. If you would like to train your own general model, please see our extra wiki page: [[: | Here you can find how to apply the general models we trained for you. If you would like to train your own general model, please see our extra wiki page: [[: | ||
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* General model for negative stain images: Select filter " | * General model for negative stain images: Select filter " | ||
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+ | <note tip> | ||
+ | **Anchor size is optional** | ||
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+ | In the configuration file, the field " | ||
+ | This should not affect the picking quality. The estimated size is still contained in .cbox files. Coordinates in EMAN and STAR format are written with a box size of 0 in that case. | ||
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+ | </ | ||
< | < | ||
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</ | </ | ||
- | <hidden initialState=“visible”> | + | <hidden initialState="visible"> |
In the following I assume that you target box size is 220. Please adapt if necessary. | In the following I assume that you target box size is 220. Please adapt if necessary. | ||
For the general **[[: | For the general **[[: | ||
< | < | ||
- | cryolo_gui.py config | + | cryolo_gui.py config |
</ | </ | ||
For the general model trained with **neural-network denoised cryo images** (with [[: | For the general model trained with **neural-network denoised cryo images** (with [[: | ||
< | < | ||
- | cryolo_gui.py config | + | cryolo_gui.py config |
</ | </ | ||
For the general model for **negative stain data** please run: | For the general model for **negative stain data** please run: | ||
< | < | ||
- | cryolo_gui.py config | + | cryolo_gui.py config |
</ | </ | ||
</ | </ |