Code

Temporal analysis of MS lesions#40

Code

Draft

plbenveniste wants to merge 26 commits intomainivadomed/canproco:mainfrom plb/nnunetivadomed/canproco:plb/nnunetCopy head branch name to clipboard

+2,170

Commits

Commits on Jun 22, 2023

• Added folder for nnunet experiment

  

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  8739639

• Formatting

  

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  c495a26

Commits on Jul 18, 2023

• added code to crop img along sc

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  cfe61fd

Commits on Jul 19, 2023

• script for seg of full dataset

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  24bcb0c

Commits on Jul 20, 2023

• modified seg and crop algo

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  919477f

• edited qc for seg and crop

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  926078d

Commits on Jul 25, 2023

• lesion clustering accross slides

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  8b8e1a9

• removed unused files for seg and crop of lesion

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  65138b0

• created file to compare two time point

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  fc33182

• modified lesion time point comparison

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  db106a4

Commits on Aug 2, 2023

• trying to register M0 to M12

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  511c168

Commits on Aug 3, 2023

• problem with registration with vert levels

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  6e70cb1

• registration and lesion matching

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  86a77d9

Commits on Aug 4, 2023

• need to fix the identification of lesions accross files

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  51374e1

Commits on Aug 7, 2023

• first working version of lesion comparison

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  7188349

Commits on Sep 11, 2023

• formatting of script

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  c63ba5f

• data analysis of canproco

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  b195245

Commits on Sep 12, 2023

• added healthy control analysis

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  c9ab813

• modified to select wanted contrast

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  11a1f5b

• added image of poor quality

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  ee3e865

Commits on Sep 14, 2023

• removed useless line

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  af03d7e

• extract labeled slices and convert to nnunet format

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  4b7d247

• renamed file to explain conversion to nnunet format

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  6406dac

• extract slice and sc_seg for region-based training

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  accea6e

Commits on Sep 15, 2023

• finished file for sc seg, slice extraction and conversion to nnunet format

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  f18e846

• code for sc seg on 3d and conversion to nnunet format

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  cf8ca41