Help hub - use cases
Welcome on MorphoNet help pages ! On this page you'll find directions to help pages, depending on what your needs are.
| I am: | I want to: | Related documentation: |
|---|---|---|
| A user | Visualize a dataset located on the MorphoNet servers (public or private) | 1. You can either : -Install the standalone app (handles large datasets) OR -Use the website (handles small datasets) 2. Use the MorphoNet 3D Viewer |
| Visualise a dataset with segmented and/or intensity images on my computer | 1. Create and view local datasets on MorphoNet standalone 2. Use the MorphoNet 3D Viewer |
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| Curate a dataset with segmented and optionally intensity images on my computer | 1. Create and view local datasets on MorphoNet standalone 2. Look at a curation example 3. Have a look at all available default plugins 4. List of automatically computed image properties 5. Use the MorphoNet 3D Viewer |
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| Create and segment a dataset with intensity images only | 1. Create a local datasets from your intensity images only on MorphoNet standalone 2. Use the MorphoNet 3D Viewer |
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| Upload a dataset with segmented and/or intensity images on the MorphoNet server | You can either : - Upload a dataset from the MorphoNet application OR - Upload a dataset with the FIJI plugin |
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| Upload a dataset with meshes | 1. Look first at the [https://morphonet.org/help/format/index.html) 2. Upload a dataset with meshes with the FIJI plugin |
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| Share a dataset on MorphoNet | Share a dataset on the website | |
| Add properties to your local dataset | 1. Have a look at the Properties format 2. You can use the MorphoNet 3D Viewer to add a property from the menu |
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| Add properties to the dataset located on the MorphoNet server | 1. Have a look at the Properties format 2. Upload properties with th FIJI plugin |
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| Add and visualize genetic properties on a dataset | 1. Create a genetic propertiy 2. Add them using the MorphoNet 3D Viewer 3. and then use them in Genetic menu |
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| Visualize time properties on a dataset | Visualize the property and interact with the viewer | |
| Download a full dataset | Download the dataset from MorphoNet | |
| Visualize and Interact with a dataset in Virtual Reality | 1. Install the standalone app on Windows 2. Open the Virtual Reality mode |
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| A bio-image analyst | Upload a dataset with segmented and/or intensity images on the MorphoNet server | Using the API you can convert you segmented images in meshes and then directly upload the meshes . You can look at this example from the documentation |
| Upload a dataset with meshes | 1. Look first at the required mesh format 2. Upload the meshes using the API . You can look at this example from the documentation |
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| Share a dataset on MorphoNet | Share a dataset with the python API | |
| Add properties to the dataset located on the MorphoNet server | 1. Have a look at the Properties format 2. Upload properties with the python API |
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| Download a full dataset from the API | Download the meshes and the properties with the python API | |
| Create custom plugins for MorphoNet | 1. Look how to use python API with the Standalone application in developper mode. 2. Create custom plugins for bio-curation | |
| Use MorphoNet to analyze 3D + t images | Look at the MorphoNet tutorials in python : - Visualize/Analyze complex 3D+time. - How to segment and track 3D cells. - How to create a simple simulation. - How cell adjacency relationships impact cell state transitions. | |
| A developer | Contribute to the development of MorphoNet 3D viewer | Clone the MorphoNet Unity GitLab Project |
| Contribute to the development of MorphoNet python API | Clone the MorphoNet Python Project | |
| Integrate MorphoNet into your website | Look at the API REST to configure your own urls |