EMSegmenter-Tasks:Template

Return to EMSegmenter Task Overview Page

Description

-- Data Assumption
-- description of pipeline with citations to algorithms used

Anatomical Tree

-- Define Anatomical Tree used in mrml file - first list the complete name and then the abbreviating used in the mrml file

• root
  • background (BG)
    • air (AIR)

Atlas

- how did you construct the atlas ?
-- what did you do for skull stripping or any other preprocessing
-- What did you do for group registration
-- how did you generate the segmentations
-- how many set of images did you use
-- where did you get the data from
-- example images of atlas such as

Template (T1)	CSF	GM	WM

Result

show original scans with segmentation as in the example below

Acknowledgment

The construction of the pipeline was supported by funding from NIH NCRR 2P41RR013218 Supplement.

Citations

• Pohl K, Bouix S, Nakamura M, Rohlfing T, McCarley R, Kikinis R, Grimson W, Shenton M, Wells W. A Hierarchical Algorithm for MR Brain Image Parcellation. IEEE Transactions on Medical Imaging. 2007 Sept;26(9):1201-1212.