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arefks 97e21afc33 added some code hace 1 semana
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.ipynb_checkpoints e8e54e0207 current state: code is finished for representation hace 10 meses
AIDAmri @ 8e7f9d3597 13cb663094 added all of the code necessery hace 9 meses
del 71676560e5 sorted and added parallel quantitative value py file hace 1 mes
mouse_connectivity e8e54e0207 current state: code is finished for representation hace 10 meses
testData 27a8ac80ee try and error with R studi hace 1 mes
Big_data_mouse_practical_2020_answer.ipynb e8e54e0207 current state: code is finished for representation hace 10 meses
GetQuantitativeValues.py d1c8a8c45b code to filter high initital impairments hace 2 semanas
GetQuantitativeValues_not_parallel.py 71676560e5 sorted and added parallel quantitative value py file hace 1 mes
GetQuantitativeValues_only_in_CST.py 97e21afc33 added some code hace 1 semana
GetQuantitativeValues_only_in_stroke_affected_slices.py 97e21afc33 added some code hace 1 semana
LME.R c039ef3b8d LME hace 1 mes
README.md 13cb663094 added all of the code necessery hace 9 meses
correlation_between_bahavior_and_DTI.py 10a414834a visu jobs hace 2 semanas
correlation_between_bahavior_and_DTI_anovaSpecific.py 132437cf05 final results hace 7 meses
correlation_fa28_behavior28subtractedbyBaseline.py e1c2b12287 visu jobs hace 2 semanas
correlation_fa28subtractedbyBaseline_behavior28subtractedbyBaseline.py 10a414834a visu jobs hace 2 semanas
extract_atlas_fa_regions.py c4c3bd5b9b stuff for poster, atlas fa valus hace 2 meses
general_corolation_all_timepoint_together.py c5834f0b56 Adjusted figure sizes hace 2 semanas
getIncidenceMap.py 1a6c3f835e deleted old things, calculated prediction plots from fa and behaviro, corrected bug in code for replicates when merging hace 4 semanas
heat_maps_correlation.py c9ecfd427e heatmap adjustment hace 1 mes
incooparate_behavior_data.py d1c8a8c45b code to filter high initital impairments hace 2 semanas
mask2MTPL.py dfaee6412d applied mask2mtpl to whitematter mask hace 7 meses
merge_csv_sheets.py d1c8a8c45b code to filter high initital impairments hace 2 semanas
overlayPlot.py 86fce3a119 current state: code is finished for representation hace 10 meses
plotting_quantitative_dti_values.py 924c18ada6 continued with pp hace 1 semana
plotting_quantitative_dti_values_partions.py 97e21afc33 added some code hace 1 semana
predictive_correlation_chronic_vs_fa_acute.py a76ef52966 figure predictive fa with behaviorr hace 1 mes
predictive_correlation_fa3_behavior28.py 1a6c3f835e deleted old things, calculated prediction plots from fa and behaviro, corrected bug in code for replicates when merging hace 4 semanas
predictive_correlation_fa3_behavior28subtractedbyBaseline.py 1a6c3f835e deleted old things, calculated prediction plots from fa and behaviro, corrected bug in code for replicates when merging hace 4 semanas
proof_of_modalities.py 9bcdec0ea4 added overlap percentage csv hace 7 meses
register_masks.py 748f48e806 changed the flip in the anat step of the registration, changed it back to before hace 7 meses
remapping_voiting_qc.py 4cf036e11b removed bad qc data from merged with behavior csv hace 1 mes
single_mask_form_allan_atlas_creator.py 1cd13fc10c added amba regoins to the mix hace 1 mes
statistical_analysis_of_quantitative_data.py d3c8f1d817 added amba regoins to the mix hace 1 mes
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 hace 7 meses
temp_code.py 062c26905a added new calculation prediction and biomarker approach table style hace 4 semanas
threshold_whitematter.py c5875af414 added white matter mask hace 7 meses
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 hace 7 meses
ttest_group_differences.py 0acc779668 ttest_sig_stroke_vs_sham hace 1 semana
viralTracing2MTPL.py 2e82796756 added viraltracin 2 mtpl space filp function hace 8 meses
visualization_all_timepoints_correlation.py 062c26905a added new calculation prediction and biomarker approach table style hace 4 semanas
visualization_fa_sham_vs_stroke.py c5834f0b56 Adjusted figure sizes hace 2 semanas
visualization_general_correlation_correlation.py c5834f0b56 Adjusted figure sizes hace 2 semanas
visualization_predictive_correlation.py a486c1adc0 adjusted fa correlation figure hace 1 mes
visualization_specific_timepoint_correlation.py 10a414834a visu jobs hace 2 semanas
vizualization_asymetry_index_fa.py 10a414834a visu jobs hace 2 semanas
vizualization_fa28_behavior28subtractedbyBaseline.py 10a414834a visu jobs hace 2 semanas
vizualization_fa28subtractedbyBaseline_behavior28subtractedbyBaseline.py 10a414834a visu jobs hace 2 semanas
volcano_plot.py e76431ef07 Quantitiative values at stroke specific locations hace 1 semana

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