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29	29	**2. Image ingestion**
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31		-Use the DeepZoom app
	31	+Open the DeepZoom app and login with your EBRAINS credentials.
32	32
33		-Click on your images in order to select them and press the "create brain from selection" button. Choose a name for your serie.
34	34
35		-The App will automatically generate the files for you. Monitor the progress under the "processing" tab and on the two dashboards on the left.
	34	+[[image:1739438392064-892.png]]
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37		-When the ingestion is finished, your serie will appear under the "Prepared Brains" tab.
	36	+Select your bucket, the one where your images are stored.
38	38
39		-Click on the "View Brain" button in order to preview your images.
	38	+Select the appropriate folder and click "Browse source" in order to visualise the images to ingest.
40	40
41		-Now go to the WebAlign app in order to start the registration to atlas.
	40	+Enter the URL of the bucket by typing "/bucket_name/output_folder_name"
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	42	+Press "Start process".
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	44	+By refreshing the status, you will see when the ingestion is completed.
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45		-
	46	+You now will have pyramid files in DZI format in your output folder. These can be opened by the WebAlign app.
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47		-
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	49	+[[image:1739439061155-890.png]]
	50	+
49	49	== **How to use WebAlign** ==
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51	51	WebAlign is an online tool for spatial registration of histological section images from rodent brains to reference 3D atlases.  Different experimental datasets registered to the same reference atlas allows you to spatially integrate, analyse and navigate these datasets within a standardised coordinate system. The output of WebAlign can be used for analysis in the online QUINT workflow.

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