copick

copick is a cross-platform API for working with cryo-electron tomography datasets. It provides a standardized way to access tomograms, picks, and segmentations, making it easier to share annotations and build ML pipelines.

We developed it initially to support the CZII CryoET ML competition on Kaggle, but it’s designed to be useful more broadly for anyone working with cryoET data.

The idea is to have a common interface that works whether your data is local, on S3, or coming from the CZ CryoET Data Portal—so you can write code once and have it work across different storage backends.

Code: github.com/copick/copick