indices

Calculer les indices de végétation

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This napari plugin was generated with Cookiecutter using @napari's cookiecutter-napari-plugin template.

Emmanuella OKAFOR (L3 PA CMI-PSI_Université d'Angers) developed this plugin during her internship with a french team called ImHorPHen (lead by David ROUSSEAU). This plugin realises vegetation indexes computation with hyperspectral images. For the momment, there are five vegetation indexes : NDVI, TCARI, NPCI, SGI, NDGI.

Installation¶

You can install napari-indices via pip:

pip install napari-indices

To install latest development version :

pip install git+https://github.com/Emmanulla0/napari-indices.git

Plugin description¶

Using this plugin requires importing the bands of a hyperspectral image into a tif file, in our case, 160 bands. You must launch it by accessing the Plugins > napari-indices> Vegetation indices menu.

Then select the vegetation index to be calculated and the different bands to be used, then click the Run button to start the calculation. This results in the images corresponding to the calculated indices.

The areas of interest to be analysed must then be defined. To do this, click the Shapes button on the Napari interface and choose the add rectangle shape from the menu that appears. Using the mouse, it is then possible to draw a rectangle on each of the two areas to be analyzed, for example a tree sheet and a green sheet of paper.

To perform the Fisher ratio calculation and display the histogram, it is necessary to go back to the Plugins > napari-indices > ExempleQWidget menu and click the **Click me! **. This action opens a new window displaying the best vegetation index to use, its corresponding Fisher ratio and the histogram of the two selected regions on the image of the vegetation index concerned. A video explaining the plugin is available at: https://uabox.univ-angers.fr/index.php/s/LqB0qs11n3jxZVJ.

Contributing¶

Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.

License¶

Distributed under the terms of the BSD-3 license, "napari-indices" is free and open source software

Issues¶

If you encounter any problems, please file an issue along with a detailed description.