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

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.