This application facilitates the users to generate population atlases for patients with different tumor subgroups [1] to emphasize their heterogeneity.
REQUIREMENTS:
- Segmentation labels of the tumor sub-regions: Non-enhancing tumor core (Label=1), Enhancing tumor core (Label=4)
- Groups: A csv file having patient's label file name e.g. SegmentationLabel.nii.gz (in first column) and group (in second column). (Note that the CSV file should be in ASCII format)
- Standard atlas: A standard atlas to map all the patients in a unified space.
- The data (segmentation label files) of multiple patients should reside under the same folder, e.g.:
- Data_of_multiple_patients
- Subject_ID1.nii.gz
- Subject_ID2.nii.gz
- ...
- Subject_IDn.nii.gz
USAGE:
- Launch the Population Atlases application using the 'Applications -> Population Atlas' menu option.
- Specify the Input (e.g., Data_of_multiple_patients) and Output directories, groups and atlas files.
- Click on 'Run PopulationAtlas" and the atlases will be displayed in the visualization window.
- This application is also available as with a stand-alone CLI for data analysts to build pipelines around, using the following example command:
PopulationAtlases.exe -i C:/PopulationAtlasesInput -l C:/GroupFile -a C:/AtlasFile -o C:/populationAtlasesOutput
Reference:
-
M. Bilello, H. Akbari, X. Da, J.M.Pisapia, S.Mohan, R.L.Wolf, D.M.O'Rourke, M.Martinez-Lage, C.Davatzikos. "Population-based MRI atlases of spatial distribution are specific to patient and tumor characteristics in glioblastoma", Neuroimage Clin. 12:34-40, 2016. DOI:10.1016/j.nicl.2016.03.007