Imaging & microscopy

Image analysis, segmentation, deconvolution and slide handling.

Fiji / ImageJ
The standard for scientific image analysis, with a plugin for almost everything.
ExternalOpen sourceDesktop install
CellProfiler
High-throughput image analysis pipelines without writing code.
ExternalBroad InstituteFree
napari
Multidimensional image viewer built for Python workflows.
ExternalOpen sourceDesktop install
QuPath
Whole-slide and digital pathology image analysis.
ExternalUniversity of EdinburghDesktop install