Difference between revisions of "2009 Summer Project Week DWI / DTI QC and Prepare Tool: DTIPrep"
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Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]] | Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]] | ||
| + | Image:DTIPrep-gui.png|DTIPrep GUI | ||
| + | Image:DTIPrep-protocol.png|DTIPrep Protocol | ||
| + | Image:DTIPrep-result.png|DTIPrep result | ||
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<h3>Progress</h3> | <h3>Progress</h3> | ||
| − | Separate command-line tools for DWI QC has been uploaded into NeuroLib | + | * Separate command-line tools for DWI QC has been uploaded into UNC [http://www.ia.unc.edu/dev/ NeuroLib] ($NeuroLib/Applications/DWIQC) |
| − | * DWIQCSliceChecker: for slice-wise intensity-related artifacts detection and gradient exclusion. | + | ** DWIQCSliceChecker: for slice-wise intensity-related artifacts detection and gradient exclusion(optimized for both single and multiple b-valued DWIs). |
| − | * DWIQCInterlaceChecker: for interlace-wise Venetian blind artifacts detection and gradient exclusion. | + | ** DWIQCInterlaceChecker: for interlace-wise Venetian blind artifacts detection and gradient exclusion(optimized for both single and multiple b-valued DWIs). |
| − | * DWIQCGradientChecker: for gradient-wise motion artifacts detection and gradient exclusion. | + | ** DWIQCGradientChecker: for gradient-wise motion artifacts detection and gradient exclusion. |
| − | * DWIBaselineAverager: for optimized multiple-b0 | + | ** DWIBaselineAverager: for optimized multiple-b0 volumes average in a nrrd DWI file(optimizing is base on either all b0 volumes or all DW volumes). |
| − | DTIPrep will be updated soon with | + | * DTIPrep will be updated soon with the upper new DWI QC tools to give better QC quality and more flexibility to the DWI/DTI QC/Prep pipeline. |
| − | I am still struggling with MINC2 :(. | + | * Discussed with Ran(U. Utah) the improvement of her eddy-current and motion artifact correction tool. |
| + | * I am still struggling with MINC2 :(. | ||
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Latest revision as of 15:38, 26 June 2009
Home < 2009 Summer Project Week DWI < DTI QC and Prepare Tool: DTIPrep
DTIPrep GUI
DTIPrep Protocol
DTIPrep result
Key Investigators
- UNC: Zhexing Liu, Heather Cody Hazlett, Martin Styner
- Utah: Casey Goodlett, Guido Gerig, Tom Fletcher
Objective
We are developing a GUI/command line tool for DWI/DTI QC and preparation.
- Both a GUI and command line tool
- "Study-specific Protocol" based
- Handles NRRD and MINC2 formats
- Image/diffusion information check
- Padding/Cropping of data
- Slice-wise, interlace-wise and gradient-wise intensity and motion check
- Motion/Eddy current correction
- DTI computing
Approach, Plan
The tool allows a "protocol" based execution via parameter files. The parameter file contains all the settings/preferences/options and can be created using the tool's GUI. This tool performs automated quality control, correct data if possible, possibly reject parts of the data and provide a reporting facility.
Our plan for the project week is to:
- Add MINC2 support
- Tune intergrations with other tools
Progress
- Separate command-line tools for DWI QC has been uploaded into UNC NeuroLib ($NeuroLib/Applications/DWIQC)
- DWIQCSliceChecker: for slice-wise intensity-related artifacts detection and gradient exclusion(optimized for both single and multiple b-valued DWIs).
- DWIQCInterlaceChecker: for interlace-wise Venetian blind artifacts detection and gradient exclusion(optimized for both single and multiple b-valued DWIs).
- DWIQCGradientChecker: for gradient-wise motion artifacts detection and gradient exclusion.
- DWIBaselineAverager: for optimized multiple-b0 volumes average in a nrrd DWI file(optimizing is base on either all b0 volumes or all DW volumes).
- DTIPrep will be updated soon with the upper new DWI QC tools to give better QC quality and more flexibility to the DWI/DTI QC/Prep pipeline.
- Discussed with Ran(U. Utah) the improvement of her eddy-current and motion artifact correction tool.
- I am still struggling with MINC2 :(.
