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arefks bdb43f9804 [DATALAD] Recorded changes 1 vecka sedan
..
.ipynb_checkpoints e8e54e0207 current state: code is finished for representation 10 månader sedan
AIDAmri @ 8e7f9d3597 13cb663094 added all of the code necessery 9 månader sedan
del bdb43f9804 [DATALAD] Recorded changes 1 vecka sedan
mouse_connectivity e8e54e0207 current state: code is finished for representation 10 månader sedan
testData 27a8ac80ee try and error with R studi 1 månad sedan
Big_data_mouse_practical_2020_answer.ipynb e8e54e0207 current state: code is finished for representation 10 månader sedan
GetQuantitativeValues.py d1c8a8c45b code to filter high initital impairments 2 veckor sedan
GetQuantitativeValues_not_parallel.py 71676560e5 sorted and added parallel quantitative value py file 2 månader sedan
GetQuantitativeValues_only_in_CST.py 97e21afc33 added some code 2 veckor sedan
GetQuantitativeValues_only_in_stroke_affected_slices.py 2ea61098ac volcano plots and fa over time 2 veckor sedan
LME.R c039ef3b8d LME 1 månad sedan
README.md 13cb663094 added all of the code necessery 9 månader sedan
correlation_between_bahavior_and_DTI.py 10a414834a visu jobs 3 veckor sedan
correlation_between_bahavior_and_DTI_anovaSpecific.py 132437cf05 final results 7 månader sedan
correlation_fa28_behavior28subtractedbyBaseline.py bdb43f9804 [DATALAD] Recorded changes 1 vecka sedan
correlation_fa28subtractedbyBaseline_behavior28subtractedbyBaseline.py bdb43f9804 [DATALAD] Recorded changes 1 vecka sedan
extract_atlas_fa_regions.py c4c3bd5b9b stuff for poster, atlas fa valus 2 månader sedan
general_corolation_all_timepoint_together.py c5834f0b56 Adjusted figure sizes 3 veckor sedan
getIncidenceMap.py 1a6c3f835e deleted old things, calculated prediction plots from fa and behaviro, corrected bug in code for replicates when merging 1 månad sedan
heat_maps_correlation.py c9ecfd427e heatmap adjustment 1 månad sedan
incooparate_behavior_data.py 2ea61098ac volcano plots and fa over time 2 veckor sedan
mask2MTPL.py dfaee6412d applied mask2mtpl to whitematter mask 7 månader sedan
merge_csv_sheets.py d1c8a8c45b code to filter high initital impairments 2 veckor sedan
overlayPlot.py 86fce3a119 current state: code is finished for representation 10 månader sedan
plotting_quantitative_dti_values.py bdb43f9804 [DATALAD] Recorded changes 1 vecka sedan
plotting_quantitative_dti_values_partions.py 2ea61098ac volcano plots and fa over time 2 veckor sedan
predictive_correlation_chronic_vs_fa_acute.py a76ef52966 figure predictive fa with behaviorr 1 månad sedan
predictive_correlation_fa3_behavior28.py bdb43f9804 [DATALAD] Recorded changes 1 vecka sedan
predictive_correlation_fa3_behavior28subtractedbyBaseline.py bdb43f9804 [DATALAD] Recorded changes 1 vecka sedan
proof_of_modalities.py 9bcdec0ea4 added overlap percentage csv 8 månader sedan
register_masks.py 748f48e806 changed the flip in the anat step of the registration, changed it back to before 7 månader sedan
remapping_voiting_qc.py 4cf036e11b removed bad qc data from merged with behavior csv 1 månad sedan
single_mask_form_allan_atlas_creator.py 1cd13fc10c added amba regoins to the mix 2 månader sedan
statistical_analysis_of_quantitative_data.py d3c8f1d817 added amba regoins to the mix 2 månader sedan
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 månader sedan
temp_code.py 062c26905a added new calculation prediction and biomarker approach table style 1 månad sedan
threshold_whitematter.py c5875af414 added white matter mask 7 månader sedan
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 månader sedan
ttest_BL_P28_differences.py 2ea61098ac volcano plots and fa over time 2 veckor sedan
ttest_BL_P3_differences.py 9d24cc2f0d added significance tests 1 vecka sedan
ttest_BL_P7_differences.py 9d24cc2f0d added significance tests 1 vecka sedan
ttest_P3_P7_differences.py 9d24cc2f0d added significance tests 1 vecka sedan
ttest_group_differences.py 2ea61098ac volcano plots and fa over time 2 veckor sedan
viralTracing2MTPL.py 2e82796756 added viraltracin 2 mtpl space filp function 9 månader sedan
visualization_all_timepoints_correlation.py 062c26905a added new calculation prediction and biomarker approach table style 1 månad sedan
visualization_fa_sham_vs_stroke.py 2ea61098ac volcano plots and fa over time 2 veckor sedan
visualization_specific_timepoint_correlation.py bdb43f9804 [DATALAD] Recorded changes 1 vecka sedan
vizualization_asymetry_index_fa.py 10a414834a visu jobs 3 veckor sedan
vizualization_fa28_behavior28subtractedbyBaseline.py 10a414834a visu jobs 3 veckor sedan
vizualization_fa28subtractedbyBaseline_behavior28subtractedbyBaseline.py bdb43f9804 [DATALAD] Recorded changes 1 vecka sedan
vizualization_fa3_behavior28.py bdb43f9804 [DATALAD] Recorded changes 1 vecka sedan
vizualization_fa3_behavior28subtractedbyBaseline.py bdb43f9804 [DATALAD] Recorded changes 1 vecka sedan
volcano_plot.py 2ea61098ac volcano plots and fa over time 2 veckor sedan
volcano_plot_BL_P28_change.py 2ea61098ac volcano plots and fa over time 2 veckor sedan

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