Software -- Available Applications

This is a list of the available tools for each of the software packages. Please see the Download page to access our software. Links on this page are to descriptions of the packages. If you have questions please contact Evan Fletcher directly by email.

• Stroke Viewer
  1. strokeviewer
• Image Segmentation
  1. segmenter (tissue classifier)
• UCD WMH Segmentation
  1. ucd_wmh_segmentation
• WMH Detection
  1. wmh_detection
• Multiple Atlas Brain Extraction
  1. Multiple Atlas Brain Extraction (ICC)
• Multiple Atlas Hippocampus And Ventricle Extraction
  1. Multiple Atlas Hippocampus And Ventricle Extraction (HCV)
• Image Alignment
  1. AlignWithParity
  2. chg_data
  3. InverseTransform
  4. LinCoregL3
  5. transformC3
  6. transformL3
  7. paritytool
  8. lincoreg-batch (gui front end for LinCoregL3)
  9. sliceAlign
• MRI Bias Correction
  1. chg_data
  2. chg_hdr
  3. CopyImageParity
  4. GetBytes
  5. GetImageParity
  6. IF2Ana
  7. IHCorr
  8. IHWarp
  9. InverseTransform
  10. LinCoregL3
  11. mvAna
  12. paritytool
  13. printVoxDims
  14. printVoxMMs
  15. spline_coregQS20
  16. transformL3
• File Manipulation Utilities
  1. chg_hdr
  2. chg_data
  3. transformL3
  4. IF2Ana
  5. Ana2IF
  6. CopyImageParity
  7. GetImageParity
  8. GetImageVolume
  9. GetBytes
  10. GetOrient
  11. printVolRange
  12. printVolMean
  13. printVoxDims
  14. printVoxMMs
  15. resizeLattice
  16. resizeVox
• Brain Boundary Shift Integral
  1. Bsi3
  2. chg_data
  3. chg_hdr
  4. foxscr
  5. IF2Ana
  6. LC
  7. LinCoregL3
  8. transformC3
  9. mvAna
  10. cpAna
  11. sv
  12. svcleanup
• Image Visualization (Slice Viewer)
  1. sv
  2. svcleanup
• Skull Strip
  1. Ana2IF
  2. chg_data
  3. chg_hdr
  4. connect
  5. histoseg
  6. holefiller
  7. IF2Ana
  8. oneup
  9. ss
  10. boundary
  11. svcleanup
• GUI Image Analysis Tool
  1. tcvtracer
  2. filter
  3. t2filter
  4. csfbrainmodel
  5. wmmodel
  6. roitracer
  7. imareader
  8. roireader
  9. reslice
  10. reorient
  11. strokeviewer
• Subject Library
  1. subjectlibrary
  2. idealab.tools (python library)
• IdeA Lab Neuroimaging Data Management Tools
  1. subjectlibrary
  2. qtdimp
  3. python library (idealab)
• IDeA Lab Template and ROIs

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