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Code for my Master thesis: Topology-Aware Losses for 3D Neuron Segmentation

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data_transformations
data_transformations
 
 
evaluation
evaluation
 
 
segmentation
segmentation
 
 
skeletonization
skeletonization
 
 
visualization
visualization
 
 
.gitignore
.gitignore
 
 
BANIS.py
BANIS.py
 
 
README.md
README.md
 
 
aff_train.sh
aff_train.sh
 
 
aff_train_distributed.sh
aff_train_distributed.sh
 
 
banis_betti3D.py
banis_betti3D.py
 
 
banis_bettiMulticlass.py
banis_bettiMulticlass.py
 
 
banis_bettiParallel.py
banis_bettiParallel.py
 
 
banis_clDice.py
banis_clDice.py
 
 
banis_malis.py
banis_malis.py
 
 
banis_skeletonRecall.py
banis_skeletonRecall.py
 
 
bettiParallel.sh
bettiParallel.sh
 
 
config.yaml
config.yaml
 
 
dask_test_debug.py
dask_test_debug.py
 
 
dask_test_debug2.py
dask_test_debug2.py
 
 
data.py
data.py
 
 
environment.yaml
environment.yaml
 
 
gaussian_affinities.py
gaussian_affinities.py
 
 
inference.py
inference.py
 
 
inference_disc.py
inference_disc.py
 
 
inference_distributed.py
inference_distributed.py
 
 
inference_test.py
inference_test.py
 
 
malis.sh
malis.sh
 
 
metrics.py
metrics.py
 
 
resubmit_slurm.py
resubmit_slurm.py
 
 
show_data.py
show_data.py
 
 
slurm_job_scheduler.py
slurm_job_scheduler.py
 
 
test_cldice.py
test_cldice.py
 
 
tryin.sh
tryin.sh
 
 
validation_watcher.py
validation_watcher.py
 
 
validation_watcher.sh
validation_watcher.sh
 
 

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Topology-Aware Losses for 3D Neuron Segmentation

Master thesis project

Based on BANIS

About

Code for my Master thesis: Topology-Aware Losses for 3D Neuron Segmentation

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Readme
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1 fork
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