--- a +++ b/elastix-parameters/Par0011/README.md @@ -0,0 +1,56 @@ +# Par0011 - elastix + +### Registration Description +intrapatient (sometimes intra-sheep); B-spline transformation; normalized correlation + +### Image data + +* 3D chest CT +* Lung +* 20 scans +* Voxel size mostly 0.7x0.7x~0.7 mm, four scans with thicker slices 1.25, 1.5, 2, 2.5 mm. +* Dimension: on average about 400 x 300 x 350 + + +Screen shots: + + + + + +### Application + +Registration of intra-patient pulmonary CT scans for the EMPIRE10 challenge at MICCAI. Sometimes sheep lungs. + +For more information visit the [EMPIRE10 website][1]. + +The results of the challenge can be found [here][2]. + +### Registration settings + +`elastix` version: 4.301 + +Command line calls: + + + elastix -f scans/x_Fixed.mhd -m scans/x_Moving.mhd -p parameters.Par0011.affine.txt -out outDir1_x + + elastix -f scans/x_Fixed2.mhd -m scans/x_Moving2.mhd -p parameters.Par0011.bspline1.txt -out outDir2_x + -t0 outDir1_x/TransformParameters.0.txt + + elastix -f scans/x_Fixed2.mhd -m scans/x_Moving2.mhd -p parameters.Par0011.bspline2.txt -out outDir3_x + -t0 outDir2_x/TransformParameters.0.txt -fMask lungMasks/x_Fixed.mhd + + +where `x` refers to the patient number (01 - 20), and `Fixed2` and `Moving2` to slightly pre-processed versions of the fixed and moving image. + +### Published in + +These registration are described in the publication: + +Marius Staring, Stefan Klein, Johan H.C. Reiber, Wiro J. Niessen and Berend C. Stoel, Pulmonary Image Registration With `elastix` Using a Standard Intensity-Based Algorithm, EMPIRE10 workshop at MICCAI. + +### References + +[1]: http://empire10.isi.uu.nl/index.php +[2]: http://empire10.isi.uu.nl/mainResults.php