├── .github └── ISSUE_TEMPLATE │ ├── bug_report.md │ └── feature_request.md ├── .gitignore ├── ABCD_DEMOS ├── FEMA_resampling_demo.m ├── FEMA_showSurf_demo.m ├── FEMA_showVol_demo.m ├── FEMA_wrapper_demo.m ├── createMiniRDS_rel4.0_demo.R └── makeDesign_demo.R ├── CHANGELOG.md ├── CONTRIBUTING.md ├── FEMA ├── FEMA_MOSTest.m ├── FEMA_PALM_produceperms.m ├── FEMA_PALM_run_perms.m ├── FEMA_calcdeltaR2.m ├── FEMA_cluster_gather.m ├── FEMA_cluster_gather_amd.m ├── FEMA_cluster_wrapper.m ├── FEMA_fit.m ├── FEMA_imageMosaic.m ├── FEMA_intersect_design.m ├── FEMA_logLik.m ├── FEMA_lookupVertices.m ├── FEMA_parse_family.m ├── FEMA_perm_significance.m ├── FEMA_process_data.m ├── FEMA_reorder_by_families.m ├── FEMA_run_on_synthetic_data.m ├── FEMA_sig2binseg_parfeval.m ├── FEMA_sobel_test.m ├── FEMA_synthesize.m ├── FEMA_tails.m ├── FEMA_tfce.m ├── FEMA_tfce_vertex.m ├── FEMA_tfce_voxel.m ├── FEMA_wrapper.m ├── logging.m ├── niftiread_amd.m ├── niftiwrite_amd.m ├── submit_cluster.py ├── submit_cluster_do ├── writeDEAP.m └── writeNIFTI.m ├── LICENSE ├── README.md ├── admin └── ABCD_DEMO_test.m ├── cmig_tools_utils ├── matlab │ ├── GenStats_QQ_plot.m │ ├── Get_volOverlay.m │ ├── Get_volOverlay2.m │ ├── M_LPH_TO_RAS.m │ ├── M_RAS_TO_LPH.m │ ├── Mvxl2lph_atlas.m │ ├── PrintMemoryUsage.m │ ├── SwEfit_amd2.m │ ├── abcdConfig.m │ ├── atlas_T1.m │ ├── blueblackred.m │ ├── calc_rows_cols_subplot.m │ ├── colormap_redblackblue.m │ ├── colvec.m │ ├── condexp.m │ ├── ctx_ctx2mgh.m │ ├── ctx_load_mgh.m │ ├── ctx_mgh2ctx.m │ ├── ctx_save_mgh.m │ ├── daletails.m │ ├── doFEMA_tests.m │ ├── drawColorbar.m │ ├── fire.m │ ├── fixed_paretotails_cdf.m │ ├── fs_save_mgh.m │ ├── fullvol.m │ ├── fwrite3.m │ ├── inputForm.m │ ├── jsystem.m │ ├── lsqnonneg_amd2.m │ ├── lsqnonneg_amd3.m │ ├── maskBrain.m │ ├── maskCSF.m │ ├── mat2mgh.m │ ├── matlab2c.m │ ├── maxmin.m │ ├── mmil_args2parms.m │ ├── mmil_check_nargs.m │ ├── mmil_cmap_blueblackred.m │ ├── mmil_colvec.m │ ├── mmil_dilate_mask.m │ ├── mmil_parms2args.m │ ├── mmil_smooth3d.m │ ├── mvnpdfln.m │ ├── ndgrid_amd.m │ ├── nearestSPD.m │ ├── palm_tfce.m │ ├── plotboxpos.m │ ├── rank_based_INT.m │ ├── redblackblue.m │ ├── redblackblue_alpha.m │ ├── reshape2nifti.m │ ├── rowvec.m │ ├── sfigure.m │ ├── str2num_amd.m │ ├── sub2ind_amd.m │ ├── subsample_volume.m │ ├── tight_subplot.m │ ├── upsample_volume.m │ ├── upsample_volume_nearest.m │ ├── userhome.m │ ├── username.m │ ├── vol_color_overlay.m │ └── winkler_pivotal.m └── r │ ├── loadtabdat.R │ ├── loadtxt.R │ ├── makeDEAPdemos.R │ └── makeDesign.R ├── docs ├── FEMAv2.0_UserGuide.pdf ├── cluster.md └── pictures │ ├── design_matrix_structure.png │ └── infographic.png ├── showSurf ├── LICENSE ├── README.md ├── SurfView_CData_new.m ├── SurfView_loadsurfs.m ├── SurfView_show_new.m ├── SurfView_surfs.mat └── tight_subplot.m └── showVol ├── .gitignore ├── ABCD_anatomy_visualization_example.m ├── LICENSE ├── README.md ├── annotationsUI.fig ├── annotationsUI.m ├── showVol.fig ├── 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