PW45_2026_Boston: Add project ReconAllCorrectionScriptBasedOnManualSubcorticalSegmentationFiles

Author: sjh26

PW45_2026_Boston/Projects/ReconAllCorrectionScriptBasedOnManualSubcorticalSegmentationFiles/README.md

@@ -0,0 +1,87 @@
+---
+layout: pw45-project
+
+permalink: /:path/
+
+project_title: Recon-all correction script based on manual subcortical segmentation files
+category: Segmentation / Classification / Landmarking
+presenter_location: 
+
+key_investigators:
+
+- name: Jarrett Rushmore
+  affiliation: Center for Morphometric Analysis
+  country: Massachusetts General Hospital, USA
+
+- name: Benoît Verreman
+  affiliation: ETS
+  country: Canada
+
+- name: Sylvain Bouix
+  affiliation: ETS
+  country: Canada
+
+---
+
+# Project Description
+
+<!-- Add a short paragraph describing the project. -->
+
+
+White and pial surfaces and parcellation from recon-all pipeline (7.4.1) need quite a few manual corrections.
+At the same time, 100 cases from HCP-YA dataset were manually segmented using HOA2 atlas (subcortical areas).
+The goal of the project is to leverage the latter to get better results with recon-all.
+
+
+
+
+## Objective
+
+<!-- Describe here WHAT you would like to achieve (what you will have as end result). -->
+
+
+1. Add flexibility to the script (different cases of use: with or without ribbon/subcortical files)
+2. Visually check the different scenario results of the script, and solve following region issues: hippocampus/amygdala, temporal lobe
+3. Make the script easier to be used by novice users
+
+
+
+## Approach and Plan
+
+<!-- Describe here HOW you would like to achieve the objectives stated above. -->
+
+
+1. All segmentation results will be computed beforehand
+2. NAMIC project week participants may be invited to test the script
+
+
+
+
+## Progress and Next Steps
+
+<!-- Update this section as you make progress, describing of what you have ACTUALLY DONE.
+     If there are specific steps that you could not complete then you can describe them here, too. -->
+
+
+
+
+
+
+
+# Illustrations
+
+<!-- Add pictures and links to videos that demonstrate what has been accomplished. -->
+
+
+_No response_
+
+
+
+# Background and References
+
+<!-- If you developed any software, include link to the source code repository.
+     If possible, also add links to sample data, and to any relevant publications. -->
+
+
+_No response_
+