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Visualizations_for_Manuscript.md

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Visualizations for Manuscript

WNW FisherZ/DOF Plots


DOF lost from regression for WNW per GLM [Visualizations]

python3 DOFplot_and_checking_voxelsinROIs.py


Fisher-Z seaborn scatterplot for Vis-Aud and WNW conditions [Visualizations]

python3 FisherZFigures.py

Physiological Plots


NiPhlem regressors [PhysioProcessing]

for s in sub-{01..25}; do bash Physio_Proc.sh $s plot_regressors; done


Ideal vs Real respiration and RVT overlays [PhysioProcessing/Physio_QC]

for s in sub-{01..25}; do python3 overlay_resp.py $s; done

Summarization Plots


Group Respiration and RVT plots [PhysioProcessing/Physio_QC] Output:

  1. Ideal time series plots for the respiration and RVT data
  2. Individual subject time series plots
  3. Group plots that are averaged/median-ed across subjects
python3 group_figures.py

Note: will want to run python3 organize_files.py first to generate the .tsv files creating those figures


Summarization Plots per task & Single Component Plots [Visualizations]
Output:

  1. Kappa-Rho scatter plot
  2. Kernel Density Estimation (KDE) Plot
  3. Whiskey Box Plot with Median
  4. Single Component Plots with highest variance explained
    • highest variance explained from 'Rejected by Regressors Only'
    • highest variance explained from 'Rejected by Both and Physiological Variability'
python3 Summarization_Plots_KappaRho_Histograms_Final.py

Group Map Generation

For WNW statistical maps, see ../FMRI_processing/GroupStatMaps.sh to create the 3dMVM group maps

For Movie/Respiration ISC, see ../GroupStatistics/MovieRespiration_Stats/GroupStats_Corrs.sh to create the 3dttest++ Within-subject correlation maps and 3dISC Between-subject correlation maps

Finding the generated figures

All summarization, physiological regressor, and FisherZ/DOF plots will be in the 'Figures_for_Manuscript/' directory:

ls /data/NIMH_SFIM/handwerkerd/ComplexMultiEcho1/Data/Figures_for_Manuscript/*

The WNW group statistical maps will be in the 'GroupMaps/' directory:

ls /data/NIMH_SFIM/handwerkerd/ComplexMultiEcho1/Data/GroupResults/GroupMaps/Final_WNW_3dMVM_Group_Maps/*

Movie/Respiration ISC group maps will be in the 'GroupISC/' directory:

ls /data/NIMH_SFIM/handwerkerd/ComplexMultiEcho1/Data/GroupResults/GroupISC/Group_Ttest/*
ls /data/NIMH_SFIM/handwerkerd/ComplexMultiEcho1/Data/GroupResults/GroupISC/Group_3dISC/*