xfr xfr
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xfr pushed to master at xfr/CBT_project 2026-10-19 12:34:34 +00:00
332226f843 Add pixi.toml configuration for project dependencies and tasks
xfr pushed to main at xfr/longitudinal 2026-10-07 22:13:32 +00:00
51abbf1150 feat: update script names and enhance iterative evaluation with table generation and plotting
a516408c4e Add iterative pseudo-labeling scripts for MONAI and nnU-Net
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xfr pushed to main at xfr/longitudinal 2026-10-07 21:28:24 +00:00
e7721760f2 Enhance MONAI training scripts and models for Pipeline B and C
xfr pushed to main at xfr/longitudinal 2026-10-05 23:28:28 +00:00
5aabe950bd feat(benchmark): extend training to 20 epochs and improve checkpoint handling for nnU-Net
xfr pushed to main at xfr/longitudinal 2026-10-05 21:47:09 +00:00
99bea82841 feat(benchmark): update benchmarking scripts with enhanced loss functions and dataset handling
2453fb48ba feat(dataset): add row-level exclusion curation for labeled volumes
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xfr pushed to main at xfr/longitudinal 2026-10-04 14:22:17 +00:00
41c88b2a67 feat(registration): implement best-of-ANTs registration for CT to T1c alignment and enhance benchmarking scripts
xfr pushed to main at xfr/longitudinal 2026-10-04 06:59:46 +00:00
12143e5bb8 fix(label_qa): resample TV warps to the 0.5 mm T1c grid
xfr pushed to main at xfr/longitudinal 2026-10-04 00:33:05 +00:00
89bb1e6331 Add visual QA script for TV label warping and registration methods
xfr pushed to main at xfr/longitudinal 2026-10-03 05:26:19 +00:00
bec0e9834f feat(benchmark): add ANTs deformable variant pipelines
aa7ac26f4c Refactor code structure for improved readability and maintainability
f87e5c51af Refactor code structure for improved readability and maintainability
96733e370d docs(benchmark): add rigid registration pipeline benchmark documentation
77653e4018 refactor(impact): replace KonfAI pip runtime with Docker elastix_impact image
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xfr pushed to master at xfr/CBT_project 2026-09-30 22:17:43 +00:00
264e17b13a Add xfr_pso.py for PSO optimization and xfr_record_planes.py for recording symmetry and endplate planes
xfr pushed to main at xfr/longitudinal 2026-09-30 10:21:43 +00:00
5e525c07c8 Add setup script for IMPACT registration pipeline shim
xfr pushed to main at xfr/longitudinal 2026-09-29 21:57:51 +00:00
73234db39e fix(benchmark): lower IMPACT sample-validity gate to unblock M6 runs
16b9828d15 Enhance registration pipelines with CT clipping and NiftyReg Docker support
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xfr pushed to main at xfr/longitudinal 2026-09-29 01:47:32 +00:00
a65189cd33 feat(pipelines): integrate niftyreg and adopt Mattes MI as the benchmark headline score
8c083abe92 feat(benchmark): switch to per-toolkit native init and full-volume registration
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xfr pushed to main at xfr/longitudinal 2026-09-28 20:10:00 +00:00
4ad972b00f refactor(pipelines): remove shared resample helper and clarify init conventions
f80f22dabe feat(pipelines): add SynthMorph Docker registration and drop DeepReg
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xfr pushed to main at xfr/longitudinal 2026-09-28 14:09:08 +00:00
6b85e950e5 feat(docs): update README and benchmark documentation for IMPACT pipeline details
xfr pushed to main at xfr/longitudinal 2026-09-28 13:01:52 +00:00
7ac9979c62 fix(docs): update conda environment name to longitudinal-313 and Python version to 3.13
xfr pushed to main at xfr/longitudinal 2026-09-28 11:01:42 +00:00
a9a4d9bba0 refactor(benchmark): use ITK Python API for elastix registration
214afd643b feat(benchmark): add Mattes MI metric and visual QA for registration evaluation
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xfr pushed to main at xfr/longitudinal 2026-09-28 08:20:36 +00:00
e8dfe0fe35 feat(registration): align CT to T1c and add benchmarking
xfr pushed to main at xfr/longitudinal 2026-09-27 10:45:13 +00:00
d8296ff40d fix(t1c): exclude TOF MRA and subtraction series
xfr pushed to main at xfr/longitudinal 2026-09-27 07:29:08 +00:00
0de7655153 fix(lee): exclude SSFP sequences and enhance T1c exclusion notes