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Releases: axondeepseg/model_seg_unmyelinated_tem

Stanford model

08 Jul 21:33
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result of 3rd training pass on the Stanford data

This release contains an ensemble of 5 nnunet models. This model segments myelinated and unmyelinated axon fibers, as well as nuclei and processes. Only the best checkpoints (wrt. validation score) are included.

This is a prediction example, with unmyelinated axons in green.
TEM_STANFORD_076_0000_rgb

Full model trained on data from SickKids Foundation

29 Feb 19:37
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These are the final results of the training performed on the SickKids Foundation data (UoT) for unmyelinated axon segmentation on TEM images. Two versions are included:

  • best contains the model checkpoints that achieved the best validation score during training
  • last contains the last model checkpoints after 1000 epochs

Usually, the best checkpoints perform better, but your mileage may vary. Both versions contain 5 models from the 5-fold cross-validation scheme, for ensembling.

First nnUNet model release

12 Oct 23:00
f54515e
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This release contains a model checkpoint from one of the 5 cross-validation folds. The checkpoint was trained on data_axondeepseg_sickkids (for more information, see the sickkids_pipeline folder.

Please note that this model is only 1 validation fold, which does not perform as well as the 5 folds ensembled. For more information, see #1.