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Confocal Microscopy in Slicer

Key Investigators

Steve Pieper ([Isomics][isomics])
Brad Lowekamp (NIH NIAID)
Andrey Fedorov (BWH)

Description

Objective

See how Slicer can be used for microscopy images.

Approach and Plan

Compare with other tool (ImageJ / FIJI)
Identify key operations
Identify sample data

Progress and Next Steps

Experimented with 7Gig 15 slice 7 channel images in nrrd format
Looked at data in FIJI (often crashed, java exceptions...)
Loaded in Slicer

confirmed that we can view and interact
ran SimpleITK filters
volume rendered

Illustrations

Click image to see movie:

Background and References