├── .gitattributes ├── .gitignore ├── LICENSE ├── README.md ├── VBA_BMA.m ├── VBA_BPA.m ├── VBA_EKF.m ├── VBA_LMEH0.m ├── VBA_MCMC_predictiveDensity.m ├── VBA_MCMC_predictiveDensity_fb.m ├── VBA_MFX.m ├── VBA_NLStateSpaceModel.m ├── VBA_PRESS.m ├── VBA_ReDisplay.m ├── VBA_designEfficiency.m ├── VBA_getLaplace.m ├── VBA_getNoise.m ├── VBA_groupBMC.m ├── VBA_groupBMC_btwConds.m ├── VBA_groupBMC_btwGroups.m ├── VBA_hyperparameters.m ├── VBA_main.m ├── VBA_optimPriors.m ├── VBA_setup.m ├── VBA_simulate.m ├── VBA_version.m ├── core ├── VBA_FreeEnergy.m ├── VBA_GN.m ├── VBA_Hpost.m ├── VBA_IX0.m ├── VBA_IX_lagged.m ├── VBA_IX_lagged_binomial.m ├── VBA_Initialize.m ├── VBA_Iphi.m ├── VBA_Iphi_UNL.m ├── VBA_Iphi_binomial.m ├── VBA_Iphi_extended.m ├── VBA_Iphi_split.m ├── VBA_Itheta.m ├── VBA_VarParam.m ├── VBA_check.m ├── VBA_check4DCM.m ├── VBA_check_errors.m ├── VBA_defaultPriors.m ├── VBA_disp.m ├── VBA_evalFun.m ├── VBA_fillInPriors.m ├── VBA_getDefaults.m ├── VBA_getU.m ├── VBA_get_dL.m ├── VBA_microTime.m ├── VBA_multisession_expand.m ├── VBA_multisession_factor.m ├── VBA_odeLim.m ├── VBA_odeLim2NLSS.m ├── VBA_onlineWrapper.m ├── VBA_wrapup.m ├── diagnostics │ ├── VBA_getDiagnostics.m │ ├── VBA_getFit.m │ ├── VBA_getSuffStat.m │ └── VBA_getVolterraKernels.m ├── display │ ├── MoveAxisToOrigin.m │ ├── Plot3AxisAtOrigin.m │ ├── PlotAxisAtOrigin.m │ ├── VBA_Bin2Cont.m │ ├── VBA_classification_display.m │ ├── VBA_displayGrads.m │ ├── VBA_displayGroupBMC.m │ ├── VBA_displayGroupBMCbtw.m │ ├── VBA_displayMFX.m │ ├── VBA_figure.m │ ├── VBA_initDisplay.m │ ├── VBA_pause.m │ ├── VBA_summary.m │ ├── VBA_summaryMFX.m │ ├── VBA_title.m │ ├── VBA_updateDisplay.m │ ├── displayResults.m │ ├── displaySimulations.m │ ├── getColors.m │ ├── getPanel.m │ ├── plotDensity.m │ ├── plotElipse.m │ ├── plotGraph3D.m │ ├── plotUncertainTimeSeries.m │ ├── plotVolterra.m │ └── rotateXLabels.m ├── sugar │ ├── getStateParamInput.m │ ├── priorPrettifyer.m │ ├── priorUglyfier.m │ ├── setInput.m │ └── setPriors.m └── unormalizedLikelihood │ ├── VBA_FreeEnergy_UNL.m │ ├── VBA_UNLtemp.m │ ├── VBA_evalAL.m │ └── VBA_evalAL2.m ├── demos ├── 0_basics │ ├── demo_dynamicalSystem.m │ ├── demo_excludeData.m │ ├── demo_modelComparison.m │ ├── demo_multisession.m │ ├── demo_sources.m │ └── demo_staticModel.m ├── 1_advanced │ ├── demo_MCsampling.m │ ├── demo_MFX.m │ ├── demo_RFX.m │ ├── demo_VolterraKernels.m │ ├── demo_delays.m │ ├── demo_designOptimization.m │ ├── demo_noiseAR1.m │ ├── demo_stochasticModel.m │ ├── demo_susceptibility.m │ └── demo_trainTest.m ├── 2_statistics │ ├── VBA_LinDecomp.m │ ├── demo_CI.m │ ├── demo_GLM.m │ ├── demo_GLM_missingData.m │ ├── demo_KalmanSmoother.m │ ├── demo_LinDecomp.m │ ├── demo_RFT.m │ ├── demo_RFT_GLM.m │ ├── demo_covComp.m │ ├── demo_generalizability.m │ ├── demo_groupbtw.m │ ├── demo_logisticRegression.m │ ├── demo_mediation.m │ ├── demo_redundancy.m │ └── demo_sparsityPrior.m ├── 3_behavioural │ ├── demo_2DChoices.m │ ├── demo_AVL_recog.m │ ├── demo_BSL.m │ ├── demo_Kalman4bandits.m │ ├── demo_Qlearning.m │ ├── demo_QlearningAsymmetric.m │ ├── demo_QlearningSimulation.m │ ├── demo_ToMgames.m │ ├── demo_VBfree.m │ ├── demo_asymRW.m │ ├── demo_discounting.m │ ├── demo_dynLearningRate.m │ ├── demo_influenceLearning.m │ ├── demo_recur.m │ ├── demo_volatileVB.m │ └── demo_wsls.m ├── 4_neural │ ├── compHRFs.m │ ├── demo_2DneuralField.m │ ├── demo_CaBBI_FHN.m │ ├── demo_CaBBI_QGIF.m │ ├── demo_FHN.m │ ├── demo_HRF.m │ ├── demo_HRF_distributed.m │ ├── demo_HRF_dummy.m │ ├── demo_HodgkinHuxley.m │ ├── demo_PSP.m │ ├── demo_behaviouralDCM.m │ ├── demo_dcm4fmri.m │ ├── demo_dcm4fmri_distributed.m │ ├── demo_dcm_1region.m │ ├── demo_dcm_motorPremotor.m │ ├── demo_dcmonline.m │ ├── demo_fitzhugh.m │ ├── demo_lin2D.m │ ├── demo_micro2macro.m │ ├── demo_negfeedback.m │ ├── demo_stability_HRF.m │ └── demo_stability_hrf.mat ├── 5_classification │ ├── demo_BMM.m │ ├── demo_DP.m │ ├── demo_GMM.m │ ├── demo_Henon.m │ ├── demo_bin.m │ └── demo_classification.m ├── 6_physics │ ├── demo_2Dlin.m │ ├── demo_LV2D.m │ ├── demo_Lorenz.m │ ├── demo_Oscillatory.m │ ├── demo_Rossler.m │ ├── demo_SHC.m │ ├── demo_VanDerPol.m │ └── demo_doubleWell.m ├── 7_mathematics │ ├── demo_Elogsig.m │ ├── demo_gaussian.m │ ├── demo_imageRegistration.m │ ├── demo_logNormal.m │ └── demo_prodsig.m └── _models │ ├── ObsRecGen.m │ ├── U_dummy.m │ ├── evolution0bisND.m │ ├── f_2DneuralField.m │ ├── f_2d.m │ ├── f_2dwu.m │ ├── f_AR.m │ ├── f_ARn.m │ ├── f_ARplus.m │ ├── f_AVL.m │ ├── f_BSL.m │ ├── f_BSLinGame.m │ ├── f_CaBBI_FHN.m │ ├── f_CaBBI_QGIF.m │ ├── f_DCMwHRF.m │ ├── f_DCMwHRFext.m │ ├── f_FitzHughNagumo.m │ ├── f_FitzHughNagumo_calcium.m │ ├── f_HGFinGame.m │ ├── f_HH.m │ ├── f_HRF.m │ ├── f_HRF2.m │ ├── f_HRF3.m │ ├── f_Hampton.m │ ├── f_Henon.m │ ├── f_Id.m │ ├── f_Kalman4bandits.m │ ├── f_L1.m │ ├── f_LV2D.m │ ├── f_Lorenz.m │ ├── f_LotkaVolterra.m │ ├── f_OpLearn.m │ ├── f_PSP.m │ ├── f_Qlearn.m │ ├── f_Qlearn2.m │ ├── f_Qlearn_dynLR.m │ ├── f_Qlearn_gammaLR.m │ ├── f_Qlearning.m │ ├── f_QlearningAsym.m │ ├── f_RLinGame.m │ ├── f_Rossler.m │ ├── f_SHC.m │ ├── f_VBfree.m │ ├── f_VBvolatile0.m │ ├── f_alpha.m │ ├── f_dbw.m │ ├── f_dcm4fmri.m │ ├── f_dcm4fmri0.m │ ├── f_dcm_extension.m │ ├── f_dcm_withU.m │ ├── f_doubleWell.m │ ├── f_embed.m │ ├── f_embed0.m │ ├── f_embedAR.m │ ├── f_fullDCM4fmri.m │ ├── f_gen.m │ ├── f_kToM.m │ ├── f_lin1D.m │ ├── f_lin2D.m │ ├── f_metaToM.m │ ├── f_replicator.m │ ├── f_rwl.m │ ├── f_rwl2.m │ ├── f_vanDerPol.m │ ├── f_vgo.m │ ├── f_wsls.m │ ├── f_wslsinGame.m │ ├── g_2AFC_basis.m │ ├── g_AVL.m │ ├── g_BSL.m │ ├── g_BSLinGame.m │ ├── g_CaBBI.m │ ├── g_DCMwHRFext.m │ ├── g_DG2.m │ ├── g_DoubleGamma.m │ ├── g_ERP.m │ ├── g_ERP_reduced.m │ ├── g_ExpUtil.m │ ├── g_Fourier.m │ ├── g_GLM.m │ ├── g_GLM4decoding.m │ ├── g_GLM_missingData.m │ ├── g_GLMsparse.m │ ├── g_GLMsparseAdapt.m │ ├── g_GammaDensity.m │ ├── g_Gaussian.m │ ├── g_HGFinGame.m │ ├── g_HRF3.m │ ├── g_HRF_distributed.m │ ├── g_Hampton.m │ ├── g_Id.m │ ├── g_Id_phi.m │ ├── g_Kalman4bandits.m │ ├── g_LinDecomp.m │ ├── g_NI.m │ ├── g_QLearning.m │ ├── g_RFX.m │ ├── g_Udummy.m │ ├── g_VBvolatile0.m │ ├── g_classif.m │ ├── g_classif0.m │ ├── g_conv0.m │ ├── g_convSig.m │ ├── g_convSig_approx.m │ ├── g_conv_approx.m │ ├── g_demo_extended.m │ ├── g_demo_susceptibility.m │ ├── g_discounting.m │ ├── g_dummy.m │ ├── g_embed.m │ ├── g_embedAR.m │ ├── g_exp.m │ ├── g_exp2d.m │ ├── g_fullDCM4fmri.m │ ├── g_goNogo.m │ ├── g_ip.m │ ├── g_kToM.m │ ├── g_logistic.m │ ├── g_matmap.m │ ├── g_metaToM.m │ ├── g_mixU.m │ ├── g_nl0.m │ ├── g_odds.m │ ├── g_odds2.m │ ├── g_rbf.m │ ├── g_rigid2D.m │ ├── g_sig.m │ ├── g_sig_u.m │ ├── g_sigm.m │ ├── g_sigm_binomial.m │ ├── g_sigmoid.m │ ├── g_softmax.m │ ├── g_softmax4decoding.m │ ├── g_ttest.m │ ├── g_u2c.m │ ├── g_u2p.m │ ├── g_vgo.m │ ├── g_wrap_perseveration.m │ ├── h_Id.m │ ├── h_goNogo.m │ ├── h_randOutcome.m │ ├── h_truefalse.m │ ├── h_whichItem.m │ └── v_discounting.m ├── legacy ├── GaussNewton.m ├── README.md ├── VBA_getISqrtMat.m ├── VBA_groupBMCbtw.m ├── VBA_sample.m ├── checkGX_binomial.m ├── cov2corr.m ├── empiricalHist.m ├── getHyperpriors.m ├── getSubplots.m ├── get_MCMC_predictiveDensity.m ├── get_MCMC_predictiveDensity_fb.m ├── invSparsify.m ├── invsigmoid.m ├── isbinary.m ├── isweird.m ├── iswithin.m ├── numericDiff.m ├── sampleFromArbitraryP.m ├── sgm.m ├── sig.m ├── sigm.m ├── sigmoid.m ├── simulateNLSS.m ├── simulateNLSS_fb.m ├── sparseTransform.m ├── sparsify.m ├── trashbin │ ├── ERP_dcm.m │ ├── compare_struct.m │ ├── create2dbf.m │ ├── extractFIR.m │ ├── getFamily.m │ ├── get_ARcov.m │ ├── gridL_binomial.m │ ├── hatch.m │ ├── isHrfStable.m │ ├── logExp.m │ └── smooth2.m └── vec.m ├── modules ├── DCM │ ├── BOLD_parameters.m │ ├── addConfounds2dcm.m │ ├── dcm2vba.m │ ├── defaultHRFparams.m │ ├── extend_dcm.m │ ├── getOptions4dcm.m │ ├── getPriors.m │ ├── get_HRFparams.m │ ├── get_U_basis.m │ ├── prepare_dcm.m │ ├── prepare_fullDCM.m │ ├── u_Fourier.m │ ├── u_FourierComplete.m │ ├── u_GaussianBumps.m │ ├── u_RBF.m │ └── vba2dcm.m ├── GLM │ ├── Contrast_MEbins.m │ ├── GLM_contrast.m │ ├── GLM_covComp.m │ ├── GLM_tolerance.m │ ├── PRESS_GLM.m │ ├── SEM_analysis0.m │ ├── lev_GLM.m │ ├── mediationAnalysis0.m │ └── mediation_contrast.m ├── OTO │ ├── VarVolatility.m │ ├── expBinom.m │ ├── getPosteriorfromOTO.m │ └── unwrapVBvolatileOTO.m ├── classical_statistics │ ├── bayesian_ttest.m │ └── doROC.m ├── classification │ ├── BMM │ │ ├── MixtureOfBinomials.m │ │ └── generateBMM.m │ ├── CRP │ │ ├── VB_CRP.m │ │ └── simulate_CRP.m │ ├── GMM │ │ ├── PCA_MoG.m │ │ ├── VBA_MoG.m │ │ ├── VBA_projectMoG.m │ │ ├── VBEM_GM.m │ │ ├── dist.m │ │ ├── generateGMM.m │ │ └── plotResults.m │ └── VBA_classification.m ├── random_field_theory │ ├── RFT_Euler.m │ ├── RFT_GLM_contrast.m │ ├── RFT_Gtf.m │ ├── RFT_Pval.m │ ├── RFT_ReDisplay.m │ ├── RFT_clusters.m │ ├── RFT_expectedTopo.m │ ├── RFT_localmax.m │ ├── RFT_main.m │ ├── RFT_rescaling.m │ └── RFT_smoothness.m └── theory_of_mind │ ├── RecToMfunction.m │ ├── defIndlev.m │ ├── extractKernels.m │ ├── fplayer.m │ ├── get_VolterraInGames.m │ ├── prepare_agent.m │ ├── prepare_kToM.m │ ├── prepare_metaToM.m │ ├── runGame_2players.m │ ├── script_test_rec.m │ ├── sizeXrec.m │ └── unwrapKTOM.m ├── sandbox ├── VBA_UNL0.m ├── demo_bayesian_ttest.m └── demo_dummyUNL.m ├── tests ├── VBA_test.m ├── demos │ └── TestAllDemos.m └── utils │ ├── test_VBA_r2.m │ ├── test_VBA_random.m │ ├── test_VBA_sigmoid.m │ └── test_VBA_sqrtm.m ├── thrid-party ├── getGitInfo.m ├── hist2.m ├── nanfft.m ├── spear.m └── spm │ ├── VBA_spm_Ce.m │ ├── VBA_spm_Fcdf.m │ ├── VBA_spm_Gpdf.m │ ├── VBA_spm_Ncdf.m │ ├── VBA_spm_Npdf.m │ ├── VBA_spm_Q.m │ ├── VBA_spm_Tcdf.m │ ├── VBA_spm_XYZreg.m │ ├── VBA_spm_Xadjust.m │ ├── VBA_spm_autocorr.m │ ├── VBA_spm_cat.m │ ├── VBA_spm_check_version.m │ ├── VBA_spm_dcm_batch.m │ ├── VBA_spm_dcm_build.m │ ├── VBA_spm_dcm_clone.m │ ├── VBA_spm_dcm_display.m │ ├── VBA_spm_dcm_explore.m │ ├── VBA_spm_dcm_fmri_check.m │ ├── VBA_spm_dcm_graph.m │ ├── VBA_spm_dcm_test.m │ ├── VBA_spm_deconv.m │ ├── VBA_spm_defaults.m │ ├── VBA_spm_detrend.m │ ├── VBA_spm_diff.m │ ├── VBA_spm_eeg_displayECD.m │ ├── VBA_spm_eeg_render.m │ ├── VBA_spm_existfile.m │ ├── VBA_spm_fieldindices.m │ ├── VBA_spm_figure.m │ ├── VBA_spm_file.m │ ├── VBA_spm_fileparts.m │ ├── VBA_spm_gamrnd.c │ ├── VBA_spm_gamrnd.m │ ├── VBA_spm_gamrnd.mexa64 │ ├── VBA_spm_gamrnd.mexmaci64 │ ├── VBA_spm_gamrnd.mexw32 │ ├── VBA_spm_gamrnd.mexw64 │ ├── VBA_spm_getSNR.m │ ├── VBA_spm_get_defaults.m │ ├── VBA_spm_hrf.m │ ├── VBA_spm_input.m │ ├── VBA_spm_inv.m │ ├── VBA_spm_invBcdf.m │ ├── VBA_spm_invFcdf.m │ ├── VBA_spm_invNcdf.m │ ├── VBA_spm_invTcdf.m │ ├── VBA_spm_length.m │ ├── VBA_spm_log_evidence.m │ ├── VBA_spm_logdet.m │ ├── VBA_spm_matrix.m │ ├── VBA_spm_mesh_adjacency.m │ ├── VBA_spm_mesh_curvature.m │ ├── VBA_spm_mesh_inflate.m │ ├── VBA_spm_mesh_label.m │ ├── VBA_spm_mesh_normals.m │ ├── VBA_spm_mesh_project.m │ ├── VBA_spm_mesh_render.m │ ├── VBA_spm_perm_mtx.m │ ├── VBA_spm_platform.m │ ├── VBA_spm_plot_ci.m │ ├── VBA_spm_print.m │ ├── VBA_spm_read_vols.m │ ├── VBA_spm_resample.m │ ├── VBA_spm_sample_vol.m │ ├── VBA_spm_sdcm_estimate.m │ ├── VBA_spm_sdcm_estimate2.m │ ├── VBA_spm_select.m │ ├── VBA_spm_split_dcm.m │ ├── VBA_spm_uitab.m │ ├── VBA_spm_unlink.m │ ├── VBA_spm_unvec.m │ ├── VBA_spm_vec.m │ ├── VBA_spm_vol.m │ └── VBA_spm_vol_nifti.m └── utils ├── VBA_EVprodX.m ├── VBA_ElogBeta.m ├── VBA_Elogsig.m ├── VBA_ExceedanceProb.m ├── VBA_Fourier2DBF.m ├── VBA_FtoR2.m ├── VBA_GaussNewton.m ├── VBA_JensenShannon.m ├── VBA_KL.m ├── VBA_PP0.m ├── VBA_PPM.m ├── VBA_SavageDickey.m ├── VBA_Shapley.m ├── VBA_abs.m ├── VBA_accuracy.m ├── VBA_bDCM_lesion.m ├── VBA_binomial.m ├── VBA_checkGN.m ├── VBA_check_struct.m ├── VBA_comparePredictions.m ├── VBA_conv2glm.m ├── VBA_cov2corr.m ├── VBA_dcmMatrices.m ├── VBA_dirichlet_moments.m ├── VBA_empiricalDensity.m ├── VBA_factorial_struct.m ├── VBA_finiteBinomial.m ├── VBA_fisher.m ├── VBA_getNtuples.m ├── VBA_getSubplots.m ├── VBA_getVar.m ├── VBA_guessHyperpriors.m ├── VBA_indicator.m ├── VBA_inv.m ├── VBA_invComplex.m ├── VBA_isBinary.m ├── VBA_isInRange.m ├── VBA_isWeird.m ├── VBA_issymmetric.m ├── VBA_kstest.m ├── VBA_logDet.m ├── VBA_logSumExp.m ├── VBA_maxMat.m ├── VBA_nanmean.m ├── VBA_nanvar.m ├── VBA_ncfcdf.m ├── VBA_numericDiff.m ├── VBA_optimCost.m ├── VBA_orth.m ├── VBA_power.m ├── VBA_prodX.m ├── VBA_psi.m ├── VBA_quantile.m ├── VBA_r2.m ├── VBA_random.m ├── VBA_removeOutliers.m ├── VBA_sigmoid.m ├── VBA_sign.m ├── VBA_softmax.m ├── VBA_sparsifyPrior.m ├── VBA_sqrtm.m ├── VBA_susceptibility.m ├── VBA_vec.m └── VBA_zscore.m /.gitattributes: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MBB-team/VBA-toolbox/HEAD/.gitattributes -------------------------------------------------------------------------------- /.gitignore: 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