Changes for page 4. Image segmentation with ilastik
Last modified by annedevismes on 2021/06/08 11:56
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... ... @@ -13,9 +13,22 @@ 13 13 14 14 For a quick introduction, watch: [[https:~~/~~/www.youtube.com/watch?v=5N0XYW9gRZY&feature=youtu.be>>url:https://www.youtube.com/watch?v=5N0XYW9gRZY&feature=youtu.be]] 15 15 16 +**Basic steps:** 17 + 18 +-Train the classifier with two classes (labeling and background) 19 + 20 +-Apply the classifier to the rest of the images (Batch processing) 21 + 22 +-Export the probability maps in HDH5 format, and simple_segmentation images in .png format, with the default settings. 23 + 16 16 === Object classification workflow === 17 17 26 +There are three options on the ilastik start up page for running Object Classification. Choose the //Object Classification with Raw Data and Pixel Prediction Maps as input//**.** 18 18 28 +-Save the object classification file in the same folder as the raw images for analysis. If the images are moved after the ilastik file is created, the link between the ilastik file and the images may be lost, resulting in a corrupted file. 29 + 30 +- 31 + 19 19 ==== ==== 20 20 21 21