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

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