feta-inference
Inference pipeline for our participation in the FeTA challenge 2021.
Team name: TRABIT
Installation
Download the two folders in https://drive.google.com/drive/folders/1V5PBETb89GEA3oSNidTpQRtNADjcdp_0?usp=sharing
Move them to feta-inference/data
Build the docker image by running
cd feta-inference
sh build_docker.sh
The tag for the docker image should be feta_challenge/trabit:latest
Run inference using docker
After you have built the docker image, you can create a docker container and obtain the predicted fetal brain segmentation by running
sh example_docker_inference.sh
The script example_docker_inference.sh
is based on the instructions found at https://feta-2021.grand-challenge.org/Submission/
Note that you have to rebuild the docker image for changes in the code to be taken into account.