Accueil Explorer Aide
Connexion
studen
/
dynamicSPECT
1
0
Fork 0
Fichiers Tickets 0 Pull Requests 0 Wiki
Aborescence: 7f7c5fe190
Branches Tags
dynamicSPECT
/
pythonScripts
Andrej Studen@Labkey-KNM 7f7c5fe190 Clearing merge conflicts il y a 1 an
..
LambdaOptimization.png 5cb119b5ff Optimization hyperparameter lambda setting illustration for regularizing on IVF parameter A il y a 1 an
README.md bbe9982a4c Adding test.py slicer script il y a 1 an
analysis.py 8d8c79e32b Updating analysis.py to work with modified version of segmentation.py il y a 1 an
analyze.ipynb 345e0bdcec Minor updates to scripts, config file is also used in vangogh mode il y a 1 an
assignOrthancStudy.ipynb ad99d7cd50 Recent updates il y a 1 an
calculateCenters.py e556aa5b32 Adding update status function to report progress il y a 1 an
calculateK1.ipynb 1440d682a0 Adding scripts il y a 3 ans
clusterAnalysis.ipynb 87d8bfd583 validating summaryIVF il y a 1 an
clusterAnalysisLeftovers.ipynb c317e06d8d Version that produced results sent in email to Luka, Oct 28th 2022. il y a 2 ans
config.py 012848dc66 Adding regularization to compartment fits il y a 1 an
doAnalysis.py a4028e9849 Minor corrections to doAnalysis il y a 1 an
doPixelAnalysis.py 985248eb9f Changing loops in doPixelAnalysis il y a 1 an
doSummary.py 6f536a609c operable doSummary.py il y a 1 an
downloadPatient.py 1440d682a0 Adding scripts il y a 3 ans
fitData.py 012848dc66 Adding regularization to compartment fits il y a 1 an
fitModel.py 012848dc66 Adding regularization to compartment fits il y a 1 an
generateCenters.ipynb fde4aa8d47 Up to generate centers, including matlab files il y a 2 ans
geometry.py 504c2ae9db Adding port from matlab fitting to python fitting, new python code based on global optimization with lambda adjusted regularizer il y a 1 an
getData.py 5bffcfe431 Cleared error from getData updateStatus, making sure that status is also checked for entries with converted images il y a 1 an
loadData.py 012848dc66 Adding regularization to compartment fits il y a 1 an
parseDicom.py 9941f28c57 Adding convertToNRRD.py script il y a 2 ans
pixelAnalysis.ipynb c317e06d8d Version that produced results sent in email to Luka, Oct 28th 2022. il y a 2 ans
plotData.py a0af1ed42c Moving plotSegmentation from segmentation.py to plotData to avoid matplotlib dependency in Slicer, through convertToNRRD.py which depends on segmentation.py il y a 1 an
plotK1.ipynb 9941f28c57 Adding convertToNRRD.py script il y a 2 ans
plotPolar.ipynb c317e06d8d Version that produced results sent in email to Luka, Oct 28th 2022. il y a 2 ans
plotViews.ipynb 1440d682a0 Adding scripts il y a 3 ans
segmentation.ipynb 15edb29494 Update to jupyter il y a 1 an
segmentation.py a0af1ed42c Moving plotSegmentation from segmentation.py to plotData to avoid matplotlib dependency in Slicer, through convertToNRRD.py which depends on segmentation.py il y a 1 an
selectCenters.ipynb 1440d682a0 Adding scripts il y a 3 ans
statAnalysis.ipynb 1440d682a0 Adding scripts il y a 3 ans
table.ipynb 1440d682a0 Adding scripts il y a 3 ans
test.ipynb 8b606a3b56 Cleaning up listCreatedFiles in workflow il y a 1 an
vtkInterface.py 9941f28c57 Adding convertToNRRD.py script il y a 2 ans
workflow.py 7f7c5fe190 Clearing merge conflicts il y a 1 an

README.md

Instructions

Look at `clusterAnalysis.ipynb' for a step by step algorithm.

The only required files for analysis are:

  • ../slicerScripts/convertToNRRD.py
  • analysis.py
  • segmentation.py
  • getData.py
  • config.py
  • segmentation.ipynb
  • clusterAnalysis.ipynb

The rest are for backup only.