Welcome to AxonDeepSeg !
Welcome to the AxonDeepSeg framework. In this site you will find the documentation on how to install and how to use AxonDeepSeg to obtain segmentations of your own microscopy data.
AxonDeepSeg is a segmentation software for microscopy data of nerve fibers. It is based on a convolutional neural network.
Segmentation of axon/myelin from various species/contrasts:
Segmentation of full slice histology and morphometrics extraction:
- Existing models
- Using AxonDeepSeg
- Activate the virtual environment
- Example dataset
- Jupyter notebooks
- Guide for manual labelling