arefks 3321dce0e3 volcano plots 2 недель назад
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.ipynb_checkpoints e8e54e0207 current state: code is finished for representation 10 месяцев назад
AIDAmri @ 8e7f9d3597 13cb663094 added all of the code necessery 9 месяцев назад
del 71676560e5 sorted and added parallel quantitative value py file 1 месяц назад
mouse_connectivity e8e54e0207 current state: code is finished for representation 10 месяцев назад
testData 27a8ac80ee try and error with R studi 1 месяц назад
Big_data_mouse_practical_2020_answer.ipynb e8e54e0207 current state: code is finished for representation 10 месяцев назад
GetQuantitativeValues.py d1c8a8c45b code to filter high initital impairments 2 недель назад
GetQuantitativeValues_not_parallel.py 71676560e5 sorted and added parallel quantitative value py file 1 месяц назад
LME.R c039ef3b8d LME 1 месяц назад
README.md 13cb663094 added all of the code necessery 9 месяцев назад
correlation_between_bahavior_and_DTI.py 10a414834a visu jobs 2 недель назад
correlation_between_bahavior_and_DTI_anovaSpecific.py 132437cf05 final results 7 месяцев назад
correlation_fa28_behavior28subtractedbyBaseline.py e1c2b12287 visu jobs 2 недель назад
correlation_fa28subtractedbyBaseline_behavior28subtractedbyBaseline.py 10a414834a visu jobs 2 недель назад
extract_atlas_fa_regions.py c4c3bd5b9b stuff for poster, atlas fa valus 2 месяцев назад
general_corolation_all_timepoint_together.py c5834f0b56 Adjusted figure sizes 2 недель назад
getIncidenceMap.py 1a6c3f835e deleted old things, calculated prediction plots from fa and behaviro, corrected bug in code for replicates when merging 4 недель назад
heat_maps_correlation.py c9ecfd427e heatmap adjustment 1 месяц назад
incooparate_behavior_data.py d1c8a8c45b code to filter high initital impairments 2 недель назад
mask2MTPL.py dfaee6412d applied mask2mtpl to whitematter mask 7 месяцев назад
merge_csv_sheets.py d1c8a8c45b code to filter high initital impairments 2 недель назад
overlayPlot.py 86fce3a119 current state: code is finished for representation 10 месяцев назад
plotting_quantitative_dti_values.py 3321dce0e3 volcano plots 2 недель назад
predictive_correlation_chronic_vs_fa_acute.py a76ef52966 figure predictive fa with behaviorr 1 месяц назад
predictive_correlation_fa3_behavior28.py 1a6c3f835e deleted old things, calculated prediction plots from fa and behaviro, corrected bug in code for replicates when merging 4 недель назад
predictive_correlation_fa3_behavior28subtractedbyBaseline.py 1a6c3f835e deleted old things, calculated prediction plots from fa and behaviro, corrected bug in code for replicates when merging 4 недель назад
proof_of_modalities.py 9bcdec0ea4 added overlap percentage csv 7 месяцев назад
register_masks.py 748f48e806 changed the flip in the anat step of the registration, changed it back to before 7 месяцев назад
remapping_voiting_qc.py 4cf036e11b removed bad qc data from merged with behavior csv 1 месяц назад
single_mask_form_allan_atlas_creator.py 1cd13fc10c added amba regoins to the mix 1 месяц назад
statistical_analysis_of_quantitative_data.py d3c8f1d817 added amba regoins to the mix 1 месяц назад
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 месяцев назад
temp_code.py 062c26905a added new calculation prediction and biomarker approach table style 1 месяц назад
threshold_whitematter.py c5875af414 added white matter mask 7 месяцев назад
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 месяцев назад
ttest_group_differences.py 3321dce0e3 volcano plots 2 недель назад
viralTracing2MTPL.py 2e82796756 added viraltracin 2 mtpl space filp function 9 месяцев назад
visualization_all_timepoints_correlation.py 062c26905a added new calculation prediction and biomarker approach table style 1 месяц назад
visualization_fa_sham_vs_stroke.py c5834f0b56 Adjusted figure sizes 2 недель назад
visualization_general_correlation_correlation.py c5834f0b56 Adjusted figure sizes 2 недель назад
visualization_predictive_correlation.py a486c1adc0 adjusted fa correlation figure 1 месяц назад
visualization_specific_timepoint_correlation.py 10a414834a visu jobs 2 недель назад
vizualization_asymetry_index_fa.py 10a414834a visu jobs 2 недель назад
vizualization_fa28_behavior28subtractedbyBaseline.py 10a414834a visu jobs 2 недель назад
vizualization_fa28subtractedbyBaseline_behavior28subtractedbyBaseline.py 10a414834a visu jobs 2 недель назад
volcano_plot.py 3321dce0e3 volcano plots 2 недель назад

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