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pipeline:window:cryolo [2019/07/23 10:53]
twagner [Overview] 		pipeline:window:cryolo [2019/08/29 14:04]
twagner
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 <hidden **Alternative: Using neural-network denoising with JANNI**> <hidden **Alternative: Using neural-network denoising with JANNI**>
 <html><br></html> <html><br></html>
-Since crYOLO 1.4 you can also use neural network denoising with [[:janni|JANNI]]. The easiest way is to use the JANNI's general model ([[:janni#janni_general_model|Download here]]) but you can also [[:janni_tutorial#training_a_model_for_your_data|train JANNI for your data]]. crYOLO directly uses an interface to JANNI to filter your data, you just have to specify the path to your JANNI model, overlap of the batches (default 24), the batch size (default 3) and a path where the denoised images should be written. +Since crYOLO 1.4 you can also use neural network denoising with [[:janni|JANNI]]. The easiest way is to use the JANNI's general model ([[:janni#janni_general_model|Download here]]) but you can also [[:janni_tutorial#training_a_model_for_your_data|train JANNI for your data]]. crYOLO directly uses an interface to JANNI to filter your data, you just have to specify the path to your JANNI model, overlap of the patches (default 24), the batch size (default 3) and a path where the denoised images should be written. 
  
 To use JANNI's denoising you have to use following entry in your config.json: To use JANNI's denoising you have to use following entry in your config.json:
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 === Negative stain images === === Negative stain images ===
 For the general model for **negative stain data** please use: For the general model for **negative stain data** please use:
 +<hidden **config.json for negative stain images**>
 <code json config.json> <code json config.json>
     {     {
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     }     }
 </code> </code>
 +</hidden>
  
 Please set the value in the //"anchors"// field to your desired box size. It should be size of the minimum particle enclosing square in pixel.  Please set the value in the //"anchors"// field to your desired box size. It should be size of the minimum particle enclosing square in pixel. 
pipeline/window/cryolo.txt ยท Last modified: 2021/02/19 10:00 by twagner

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