Volume 2, Algorithms - mipav - National Institutes of Health

M I P A V
M e d i c a l I m a g e P r o c e s s i n g, A n a l y s i s, & V i s u a l i z a t i o n
Chapter 2, Using MIPAV Algorithms:
Skin identification ............................................................... 565
Tissue Classification ............................................................ 565
Fasceal detection and subcutaneous fat detection.................... 566
Bone and bone marrow identification..................................... 566
Threshold classification and quantification .............................. 566
Quadriceps identification, classification, and quantification ....... 567
Hamstring and Sartorius identification, classification, and
quantification ..................................................................... 567
Results.............................................................................. 567
Image types ...................................................................... 568
References......................................................................... 569
Applying the Muscle Segmentation method ..................... 569
VOI selection ..................................................................... 570
Thigh ................................................................................ 571
Bone................................................................................. 571
Muscles ............................................................................. 572
Saving segmentation VOIs ................................................... 572
Analysis............................................................................. 573
To show/hide LUT:.............................................................. 574
Abdomen Segmentation.................................................... 576
Background ................................................................ 576
Smoothing contours ............................................................ 578
References......................................................................... 578
Applying the method for the abdomen segmentation ........ 579
Abdomen tab ..................................................................... 579
Modifying VOIs ................................................................... 580
Tissue tab.......................................................................... 582
Muscles tab........................................................................ 583
VOI tab ............................................................................. 584
VOI tab warnings................................................................ 584
Where VOIs are stored ........................................................ 586
Changing color for VOIs....................................................... 587
Manual segmentation .......................................................... 588
MIPAV automatic segmentation ............................................ 590
Using the MIPAV VOI statistics generator ............................... 591
Analysis tab ....................................................................... 592
Saving the statistics as a PDF file.......................................... 593
To show and hide LUT ......................................................... 595
Optimized Automatic Registration 3D .................................. 596
Background ................................................................ 596
Image types ...................................................................... 597
Outline of the method ......................................................... 598
Pre-optimization steps..................................................... 598
Optimization steps.......................................................... 598
Post optimization............................................................ 599
Pre Optimization ................................................................. 599
Blurring......................................................................... 599
MIPAV User’s Guide, Volume 2, Algorithms 16
12/5/08