Molecular, physiological and functional features underlying cortical thinning related to antipsychotic medication use
This is a repository for the code for a project on antipsychotic medication effects on cortical thickness and the underlying features of brain organization.
Raw imaging data or individual level demographic/clinical data is not shared.
The data folder contains:
Group level statistical maps:
- lh.sig.nii
- rh.sig.nii
- lh.gamma.nii
- rh.gamma.nii
Maps corrected for multiple comparisons:
- lh.perm.th13.abs.sig.masked.mgh
- lh.perm.th20.abs.sig.masked.mgh
- rh.perm.th13.abs.sig.masked.mgh
- rh.perm.th20.abs.sig.masked.mgh
Parcel-wise partial correlation data from the turku sample and from the ENIGMA study.
- turku_partial_r.csv
- ENIGMA_S32_partial_correlation_between_cortical_thickness_and_chlorpromazine_equivalents.csv
Precalculated neurosynth loadings
The code folder contains the scripts and programs used to analyze the neuroimaging data and create all the figures.
the effect of lifetime antipsychotic exposure on cortical thickness.ipynb
contains R code to test the effects of lifetime exposure to antipsychotics on cortical thickness in the Turku sample and for sensitivity analyses.
plot_ap_effects_turku.ipynb
plots group level statistical maps to create figures 1 and supp fig 1
neuromaps_analysis.ipynb
does the main comparisons between cortical thickness changes
and brain features in the Turku and ENIGMA samples.
Plot_neurosynth.ipynb
plots the brain features correlations for figure 2 and figure 4. This also creates supp fig 2
compare_turku_enigma.ipynb
creates fig 3 comparing Turku and ENIGMA samples.
Neurosynth_analysis.ipynb
makes comparison between antipsychotic related cortical thinning and neurosynth
Plot_neurosynth.ipynb
plots comparisons between antipsychotic related cortical thinning and neurosynth and creates fig 5
This folder is an output folder for all figures created by the code
This folder contains the desikankilliany parcellation in fsaverage and MNI152 spaces. It also contains precalculated spins used in the analyses
This folder holds all the tables in the manuscript and supplement