electron microscopy
some thoughts and opinions
Workflow
Sample preparation
Don't forget your PPE. Maybe some live cell imaging protocols one day. Also hopefully SQFS and cAT.
Ultramicrotomy
Diatome knives on a Leica UC8. These are the tools for tiny miracles. S3EM, trimming blocks for SBF. I hope someone is writing a biography of Helmut.
Imaging and Image Processing
Virtual Stack Alignment in Fiji for rigid initial alignment. 3dem.org --> AlignEM-SWiFT.
Segmentation
Reconstruct, VAST, MIB, Napari. Software exists, how do we use it?
Automated Segmentation
cDeep3M, Gunpowder + LSDs. I hope to summarize my journey to understanding the steps to and beyond segmentation, namely watershed and agglomeration, in isotropic and anisotropic data.