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qurit / PyTheranostics Public

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Add total segmentator module to pyTheranostics#100

Merged

carluri merged 21 commits intodevqurit/PyTheranostics:devfrom

total_segqurit/PyTheranostics:total_segCopy head branch name to clipboard

Jan 22, 2026

Conversation Commits21 (21)Checks Files changed

Merged

Add total segmentator module to pyTheranostics#100
carluri merged 21 commits intodevfrom
total_seg

Commits

Commits on Jan 21, 2026

Add totalsegmentator dependencies under optional dependencies
carluri
committed
Create .json template for configuration of TotalSegmentator VOIs for user flexibility
carluri
committed
Add nibabel to the totalsegmentator options
carluri
committed
rename tools to rtst_utilities so that is clear and has the tools needed for totalsegmentator
carluri
committed
Add the totalsegmentator modules
carluri
committed
Create fetchers modules to download data for testing and evaluation.
carluri
committed
Add title for dataset being downloaded
carluri
committed
Recognize parent folder as timepoint
carluri
committed

Commits on Jan 22, 2026

Add a total_seg_config to determine which regions to include, rename, and combine
carluri
committed
Fix bug combining VOIs
carluri
committed
Split total segmentator from RTst generation
carluri
committed
Consolidate methods into just one total segmentator module
carluri
committed
Rename method to totalseg_segment
carluri
committed
Add method to initialize a pytheranostics project
carluri
committed
Documentation on how to get started with a pytheranostics project
carluri
committed
Clean total segmentator configuration
carluri
committed
Clean voi_mapping config template
carluri
committed
Rename data_dir to avoid confusion with home directory
carluri
committed
Remove run of full pipeline after modularity has been implemented
carluri
committed
add tutorial for total_segmentator module use
carluri
committed
Fix level for step 5
carluri
committed

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