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2024_Ruthe_SND
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arefks c4c3bd5b9b stuff for poster, atlas fa valus 2 months ago
..
.ipynb_checkpoints e8e54e0207 current state: code is finished for representation 9 months ago
AIDAmri @ 8e7f9d3597 13cb663094 added all of the code necessery 9 months ago
mouse_connectivity e8e54e0207 current state: code is finished for representation 9 months ago
Big_data_mouse_practical_2020_answer.ipynb e8e54e0207 current state: code is finished for representation 9 months ago
GetQuantitativeValues.py 90c52b4a40 changed getquantitvevalues scode so that white matter tracts are added to the mix 6 months ago
README.md 13cb663094 added all of the code necessery 9 months ago
correlation_between_bahavior_and_DTI.py e702eb74fb adjusted code and ran it again 6 months ago
correlation_between_bahavior_and_DTI_anovaSpecific.py 132437cf05 final results 7 months ago
extract_atlas_fa_regions.py c4c3bd5b9b stuff for poster, atlas fa valus 2 months ago
heat_maps_correlation.py e702eb74fb adjusted code and ran it again 6 months ago
incooparate_behavior_data.py e702eb74fb adjusted code and ran it again 6 months ago
mask2MTPL.py dfaee6412d applied mask2mtpl to whitematter mask 6 months ago
overlayPlot.py 86fce3a119 current state: code is finished for representation 9 months ago
plotting_quantitative_dti_values.py ff4909cb29 editet statistics to dunnett test to have only time effect control group not all verses all 6 months ago
plotting_quantitative_dti_values_atlas_based.py c4c3bd5b9b stuff for poster, atlas fa valus 2 months ago
proof_of_modalities.py 9bcdec0ea4 added overlap percentage csv 7 months ago
register_masks.py 748f48e806 changed the flip in the anat step of the registration, changed it back to before 7 months ago
remapping_voiting_qc.py 18752865ca changed voitign with script to have additional columns 7 months ago
statsmodel_training.py 63701b1cca code ready for: mixed model analysis and the post hoc tests nad figures with their relevant outputs. also code and results ready for heatmaps of the behavioral and dwi values correlations 7 months ago
threshold_whitematter.py c5875af414 added white matter mask 6 months ago
transpose_csv.py 63701b1cca code ready for: mixed model analysis and the post hoc tests nad figures with their relevant outputs. also code and results ready for heatmaps of the behavioral and dwi values correlations 7 months ago
viralTracing2MTPL.py 2e82796756 added viraltracin 2 mtpl space filp function 8 months ago

README.md

AIDAmri code

This is the code used to process raw Bruker data and to apply transformations from the drawn masks to each individual subject. Note that this is a subdataset linked to the GitHub page of AIDAmri.

The link to the exact branch of the code which was used for this process is: AIDAmri - SND_Mask_trafu branch.

Example usage of code

root@9c22c56092e5:/aida/DATA/code# python mask2MTPL.py -i /aida/DATA/output/Tract_Density -o /aida/DATA/output/Nifti_Tract_density_registered