Jump to Content

Denoising-based Image Compression for Connectomics

Alex Shapson-Coe
Richard L. Schalek
Jeff W. Lichtman
bioRxiv (2021)


Connectomic reconstruction of neural circuits relies on nanometer resolution microscopy which produces on the order of a petabyte of imagery for each cubic millimeter of brain tissue. The cost of storing such data is a significant barrier to broadening the use of connectomic approaches and scaling to even larger volumes. We present an image compression approach that uses machine learning-based denoising and standard image codecs to compress raw electron microscopy imagery of neuropil up to 17-fold with negligible loss of reconstruction accuracy.