Getting Started

Step-by-step installation instructions for the newest version for new or returning users


Detailed descriptions of parameters, outputs and demo videos of all the modules included in empanada-napari


Indepth tutorials on how to finetune, train and run inference through this plugin

Share your model

Share your trained model with the us and the vEM community

This version of empanada-napari was created by Abhishek Bhardwaj and Madeline Barry https://cmm.ccr.cancer.gov/volume-em/

Citing this work#

If you use results generated by this plugin in a publication, please cite:

Instance segmentation of mitochondria in electron microscopy images with a generalist deep learning model

Conrad, R., & Narayan, K.

(2023). Cell Systems, 14(1), 58-71. e5. //doi.org/10.1016/J.CELS.2022.12.006