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Author

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1		-XWiki.puchades
	1	+XWiki.sharoncy

Content

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1	1	== [[image:ilastik_logo.PNG||style="float:right"]] ==
2	2
3		-== (% style="color:#c0392b" %)Analysis approach for series of rodent brain section image(%%) ==
	3	+== (% style="color:#c0392b" %)ilastik(%%) ==
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5	5	Ilastik is a versatile image analysis tool specifically designed for the classification, segmentation and analysis of biological images based on supervised machine learning algorithms.
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	7	+== (% style="color:#c0392b" %)Analysis approach for series of rodent brain section image(%%) ==
	8	+
7	7	There are two main approaches for the analysis of rodent brain section images.
8	8
9	9	1. Pixel classification only (with two or more classes)
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23	23
24	24	-Apply the classifier to the rest of the images (batch processing)
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26		--Export the probability maps in HDF5 format, and simple_segmentation images in PNG format with the default settings.
	28	+-Export the probability maps in HDH5 format, and simple_segmentation images in PNG format with the default settings.
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28	28	-Review the results.
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34	34	-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.
35	35
36		--In the **Input Data** applet, upload the original images and their respective probability maps in HDF5 format (output from the Pixel Classification).
	38	+-In the **Input Data** applet, upload the original images and their respective probability maps in HDH5 format (output from the Pixel Classification).
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38	38	-Train the classifier with two classes (labelling and artefacts)
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