Sometimes these double as a general toolbox, like voxelmorph.

• VoxelMorph
  Learning-based image alignment, including VoxelMorph, SynthMorph, AtlasMorph, HyperMorph, etc, and general utilities.
  Both pytorch and tensorflow, although most is in tensorflow.
  Related more experimental library: voxelmorph-sandbox
• UniverSeg
  Universal Medical Image Segmentation
• Hyperlight
  Hypernetworks in Pytorch made easy
• Thunderpack
  Blazingly fast multi-modal data format
• Topofit
  Learning-basedfitting of surfaces to cerebral cortex in brain MRI
• ScribblePrompt
  Interactive medical image segmentation with bounding boxes, clicks and scribbles
• MultiverSeg
  Scalable interactive segmentation of biomedical imaging datasets with in-context guidance

Libraries with tools offering support to the sort of research we do

• voxel
  torch-focused general purpose medical volume processing
• neurite
  medical image analysis, mostly in tensorflow/keras for now.
  Related more experimental library: neurite-sandbox
• voxynth
  Synthesizing voxel data, based on the generative modeling in SynthSeg, SynthMorph, SynthStrip, etc

• teramedical
  large-scale medical data processing library, with dataset-specific processing [in conjunction with Sabuncu Lab at Cornell]
• daldata internal library for quickly loading/handling data for torch-based ML projects

• surfa
  General purpose medical image handling and volume processing (general/non-DL)

• matlib
  extensive matlab general purpose libraries

• resources lab resources (internal datasets, etc)
• idealab light jupyters on ideas and tutorials
• dalcalab_resources
  [name TBD?] internal easy-access resources, including data and model supporting utilities, for the dalcalab