Difference between revisions of "2014 Project Week:PkModeling user tool"

From NAMIC Wiki
Jump to: navigation, search
(Created page with '__NOTOC__ <gallery> Image:PW-SLC2014.png|Projects List </gallery> ==Key Investigators== * BWH: Andrey Fedorov, Alireza Mehrtash * MGH: Jaya…')
 
 
(2 intermediate revisions by one other user not shown)
Line 5: Line 5:
  
 
==Key Investigators==
 
==Key Investigators==
* BWH: Andrey Fedorov, Alireza Mehrtash
+
* BWH: Andrey Fedorov, Ron Kikinis
 
* MGH: Jayashree Kalpathy-Cramer
 
* MGH: Jayashree Kalpathy-Cramer
 
* GE: Jim Miller
 
* GE: Jim Miller
Line 25: Line 25:
 
<div style="width: 27%; float: left; padding-right: 3%;">
 
<div style="width: 27%; float: left; padding-right: 3%;">
 
<h3>Progress</h3>
 
<h3>Progress</h3>
*  
+
* Design ideas: 3 modules of increasing complexity
 +
** one-click analysis: minimum interaction: fixed T1, population (model) AIF, produce maps and summary statistics
 +
** minimum user guidance: add manual AIF ROI definition for patient-specific AIF, allow direct ROI definition on the multivolume node
 +
** full analysis: choice of manual/auto/model AIF, T1 map based on FA/TR/IR
 +
* components to be added:
 +
** T1 modeling: FreeSurfer mri_ms_fitparams?
 +
** automatic AIF detection (MGH tool)
 +
** R2* correction from dual-echo sequence (MGH)
 +
* Features to be added to PkModeling
 +
** accept multivolume in concentration units (defined based on an attribute in the header, in the future need to consider adding units information to the Slicer volumes, on import?)
 +
** add population AIF
 +
* tested PkModeling on MGH brain DCE
 
</div>
 
</div>
 
</div>
 
</div>

Latest revision as of 16:52, 10 January 2014

Home < 2014 Project Week:PkModeling user tool

Key Investigators

  • BWH: Andrey Fedorov, Ron Kikinis
  • MGH: Jayashree Kalpathy-Cramer
  • GE: Jim Miller
  • Isomics: Steve Pieper

Project Description

Objective

  • Our goal is to develop an interactive module in 3D Slicer to help non-technical user do PK modeling. This module will wrap PkModeling extension CLI, possibly other pre-/post-processing tools, guide the user through the various choices that can be made, generate the maps and collect the summary statistics that will eventually be saved in a standard form.

Approach, Plan

  • discuss the desired capabilities of the module and its design
  • review the various components available in Slicer, or in the process of being integrated into Slicer that can be used by the module
  • test PkModeling functionality on the datasets from BWH and MGH

Progress

  • Design ideas: 3 modules of increasing complexity
    • one-click analysis: minimum interaction: fixed T1, population (model) AIF, produce maps and summary statistics
    • minimum user guidance: add manual AIF ROI definition for patient-specific AIF, allow direct ROI definition on the multivolume node
    • full analysis: choice of manual/auto/model AIF, T1 map based on FA/TR/IR
  • components to be added:
    • T1 modeling: FreeSurfer mri_ms_fitparams?
    • automatic AIF detection (MGH tool)
    • R2* correction from dual-echo sequence (MGH)
  • Features to be added to PkModeling
    • accept multivolume in concentration units (defined based on an attribute in the header, in the future need to consider adding units information to the Slicer volumes, on import?)
    • add population AIF
  • tested PkModeling on MGH brain DCE

References