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auto_2d_class_selection [2020/08/26 12:56] twagner * |
auto_2d_class_selection [2020/08/27 15:11] twagner [Changelog] |
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- | Our binary classification | + | Our binary classification |
- | For class averages, it supports .hdf/.mrcs, for micrographs | + | Cinderella |
- | Cinderella was written to automate cryo-em data processing. | + | //Cinderella// was written to automate cryo-em data processing. |
- | We provide a pretrained general model for classifying class averages.([[auto2d_tutorial|see tutorial]]). But you can easily train it with your own set of classes/micrographs/ | + | We provide a pretrained general model for classifying class averages ([[auto2d_tutorial|see tutorial]]). But you can easily train it with your own set of classes, micrographs, and/or subtomograms. |
< | < | ||
- | * **License**: | + | * **License**: |
- | * **GitHub repository**: https:// | + | * **Repository**: [[https:// |
</ | </ | ||
====== 2D class selection model ====== | ====== 2D class selection model ====== | ||
- | Our model was trained on a set of 2D classes from ISAC. During the creation of the training | + | Our model was trained on a set of 2D classes from both [[https:// |
{{ :: | {{ :: | ||
- | <note important> | + | |
- | The training dataset does **not contain any Relion classes**, so it might be that Cinderella will not work with well them. | + | |
- | </ | + | |
You can easily [[auto_2d_class_selection# | You can easily [[auto_2d_class_selection# | ||
- | Right now our model is trained on **20 datasets**. But we will increase the number often! | + | Right now our model is trained on **4773 good classes and 5390 bad classes**. |
====== Download ====== | ====== Download ====== | ||
====Cinderella==== | ====Cinderella==== | ||
- | Version: 0.6.0 | + | Version: 0.7.0 |
- | Uploaded: | + | Uploaded: |
[[https:// | [[https:// | ||
====Pretrained model (2D classes)==== | ====Pretrained model (2D classes)==== | ||
- | Uploaded: | + | Uploaded: |
- | [[ftp:// | + | [[ftp:// |
====Archive==== | ====Archive==== | ||
- | Old versions of cinderella and the pretrained model can be found in the [[cinderella_archive|archive]] | + | Old versions of cinderella and the pretrained model can be found in the [[cinderella_archive|archive]]. |
====Changelog==== | ====Changelog==== | ||
=== Version 0.7 === | === Version 0.7 === | ||
- | * Now uses a circular masks by default. This allows to use full rotation during data augmentation. Can be deactivate | + | * Now uses a **circular masks by default**. This allows to use full rotation during data augmentation. Can be deactivated |
- | * Fix numerical instability that occur when you have classes filled with a constant value (Thanks to Grigory Sharov). | + | * The general models now includes **300 new good Relion classes and 2000 new bad Relion classes** (//Thanks to Takanori Nakane and Grigory Sharov// |
- | * Fix a problem with classes that contain NaN values. | + | * Fixed numerical instability that occurs |
+ | * Fixed a problem with classes that contain NaN values. | ||
+ | * Fixed an issue when filenames contain more than one point. | ||
=== Version 0.6 === | === Version 0.6 === |