Files in umx

Structural Equation Modeling and Twin Modeling in R

NEWS.md README.md R/umx_ICA_report.R R/umx_build_umxGxEbiv.R R/umxCloud.R R/datasets.R R/umx_build_umxCP.R R/umx_build_umxSexLim.R R/umx_build_umxACEv.R R/umxAPA.R R/umx-package.R R/umxGSEM.R R/umx_fit_stash_CIs.R R/xmuWLS.R R/TRHG_code.R R/umxRAM_DE.R R/umx_build_high_level_models.R R/umxRAM.R R/tmx.R R/umx_build_umxACE.R R/umx_build_umxIP.R R/build_run_modify.R R/umxGSEM_std.R R/umxDoC2.R R/xmu_make_top_twin_models.R R/financial_functions.R R/fit_and_reporting.R R/umxRAM_GLM.R R/umxSummary.MxModel.R R/xmu_build_model_helpers.R R/package.R R/umxPower.R R/umxCLPM.R R/umxMeasurementInvariance.R R/xmu_update_covar.R R/misc_and_utility.R R/umxMatrixFree.R R/gh.R R/umxDoCbyPath.R R/umxCompare.R R/xmu_robust_SB_savalei.R R/umxLISREL.R R/xmu.R R/xmuGSEM.R R/umx_build_umxGxE.R R/fin_volatility_helper.R R/umx_data.R R/umx_build_umxSimplex.R R/double_entry.R R/umx_build_polychoricMatrix3.R R/umxDoC.R R/umxMRDoC.R R/umx_fit_umxFitIndices.R R/lavanify2ram.R inst/doc/umx.R inst/doc/modification_indices.R inst/doc/WLS_in_umx.Rmd inst/doc/modification_indices.Rmd inst/doc/umx.Rmd inst/doc/SEs_robustSEs_and_ProfileCIs.R inst/doc/SEs_robustSEs_and_ProfileCIs.Rmd inst/doc/umxGSEM_Psych_LDSC.Rmd inst/doc/WLS_in_umx.R inst/doc/umxGSEM_Psych_LDSC.R inst/doc/fit_indices_browne_satorra_bentler_savalei.Rmd tests/testthat.R tests/testthat/test_WLS_Savalei_lavaan_parity.R tests/testthat/test_umx_score_scale.r tests/testthat/test_umx_lower2full.r tests/testthat/test_umxRAM_weight.R tests/testthat/test_umx_has_means.r tests/testthat/test_umxGSEM_std.R tests/testthat/test_WLS_umxSummary_WLS_routing.R tests/testthat/test_umxPower.r tests/testthat/test_MxModel_residuals.r tests/testthat/test_xmu_match.arg.r tests/testthat/test_umxPath.r tests/testthat/test_MLR_fit_and_compare.R tests/testthat/test_SRMR-test.r tests/testthat/test_double_entry.r tests/testthat/test_prolific_scoring_stub.R tests/testthat/test_WLS_chi_consistency.R tests/testthat/test_WLS_umxCompare_WLS_routing.R tests/testthat/test_WLS_ordinal_robust.R tests/testthat/test_umx_is_cov.r tests/testthat/test_lavaan.r tests/testthat/test_WLS_xmu_compare_WLS.R tests/testthat/test_umx_residualize.r tests/testthat/test_umxRAM_DE.R tests/testthat/test_WLS_lavaan.R tests/testthat/test_data_gxeData.R tests/testthat/test_umxCompare_constraint_note.R tests/testthat/test_data_HSwls.R tests/testthat/test_GSEM_goldens.R tests/testthat/test_umxACE_GLM_vs_threshold.R tests/testthat/test_umxGxE_cov.R tests/testthat/test_umxAPA_pval.r tests/testthat/test_umxBuild_run_modify.r tests/testthat/test_umxMeasurementInvariance.R tests/testthat/test_umx_set.r tests/testthat/test_umxFitAndReporting.r tests/testthat/test_umxRAM_etc.r tests/testthat/Rplots.pdf tests/testthat/test_umxCloud.R tests/testthat/test_datasets_in_umx.r tests/testthat/test_umxAPA.r tests/testthat/test_umxGxE.r tests/testthat/test_umx_has_CI.r tests/testthat/test_umx_reorder.r tests/testthat/test_umx_CLPM.r tests/testthat/test_umxACE_GLM.R tests/testthat/test_WLS_summary_compare_workflow.R tests/testthat/test_umx_make.R tests/testthat/test_xmu_safe_run_summary.r tests/testthat/test_xmu_make_mxData.r tests/testthat/test_fin_.r tests/testthat/test_umxGSEM_dl_tutorial_files.R tests/testthat/test_WLS_HSwls_catML_scale.R tests/testthat/test_umx_DOC_etc.r tests/testthat/test_uncertainty_reporting.R tests/testthat/test_umxConfint.r tests/testthat/test_umxCP.r tests/testthat/test_umxMatrixFree.R tests/testthat/test_plot.MxLISRELModel.r tests/testthat/test_umxLISREL.r tests/testthat/test_umxFactorScores.r tests/testthat/test_umx_stack.R tests/testthat/test_umx_rename.r tests/testthat/test_poly.r tests/testthat/test_umxRAM_GLM.R tests/testthat/test_openmx_engine_status.R tests/testthat/test_umxGSEM_ldsc.R tests/testthat/test_umx_ACE_etc.r tests/testthat/test_umx_misc.r vignettes/WLS_in_umx.Rmd vignettes/modification_indices.Rmd vignettes/umx.Rmd vignettes/SEs_robustSEs_and_ProfileCIs.Rmd vignettes/umxGSEM_Psych_LDSC.Rmd vignettes/fit_indices_browne_satorra_bentler_savalei.Rmd man/oddsratio.Rd man/umxUnexplainedCausalNexus.Rd man/umxSummaryCP.Rd man/umxGxE.Rd man/xmu_standardize_RAM.Rd man/xmu_WLS_polycor_names.Rd man/xmu_ram_de_parse_censor_meta.Rd man/umxGxE_window.Rd man/umx_make_sql_from_excel.Rd man/umx_set_plot_file_suffix.Rd man/xmu_simplex_corner.Rd man/bucks.Rd man/umx_wide2long.Rd man/umx_is_MxModel.Rd man/ggAddR.Rd man/umxReduce.Rd man/xmu_standardize_IP.Rd man/loadings.Rd man/xmuLabel.Rd man/xmu_starts.Rd man/umx_array_shift.Rd man/umx_get_options.Rd man/umxModelNames.Rd man/noNAs.Rd man/umxPlot.Rd man/tmx_show.MxMatrix.Rd man/reliability.Rd man/umx_apply.Rd man/umxACE_DE.Rd man/umxPlotACEcov.Rd man/umx_make_double_entry_data.Rd man/umxGetParameters.Rd man/xmu_robust_WLS_fit.Rd man/xmu_summary_RAM_group_parameters.Rd man/umxGSEM_label_ldsc.Rd man/xmu_gsem_expand_snp.Rd man/xmu_lavaan_process_group.Rd man/umxCloud.Rd man/xmu_twin_make_def_means_mats_and_alg.Rd man/xmu_extract_column.Rd man/xmu_set_sep_from_suffix.Rd man/umxSummary.MxModel.Rd man/xmu_topo_sort.Rd man/RMSEA.MxModel.Rd man/xmu_ace_de_parse_censor_rule.Rd man/umxPath.Rd man/umxParameters.Rd man/umxPlotSimplex.Rd man/prolific_check_ID.Rd man/fin_value_CarryCost.Rd man/umx_is_RAM.Rd man/xmu_print_algebras.Rd man/umx_scale.Rd man/xmu_is_gsem_covstruc.Rd man/umx_has_been_run.Rd man/xmu_data_missing.Rd man/xmuValues.Rd man/xmu_data_swap_a_block.Rd man/umxReduceACE.Rd man/Psych_LDSC.Rd man/SE_from_p.Rd man/xmu_standardize_ACEcov.Rd man/xmuCalculateSRMR.Rd man/umx_set_condensed_slots.Rd man/xmu_genomicmx_release_page_url.Rd man/umx_lower2full.Rd man/fin_value_CAGR.Rd man/xmu_safe_run_summary.Rd man/xmu_ace_de_release_binary_v1.Rd man/plot.MxLISRELModel.Rd man/umxPlotCP.Rd man/xmu_get_CI.Rd man/umx_open_CRAN_page.Rd man/xmu_dot_make_residuals.Rd man/umx_is_LISREL.Rd man/Anthro_LDSC.Rd man/umxSummaryACE_GLM.Rd man/xmu_savalei_scaling_factor.Rd man/xmu_relevel_factors.Rd man/umx_file_load_pseudo.Rd man/umxRotate.MxModelCP.Rd man/calculateStrictSb.Rd man/umxRAM_GLM.Rd man/xmu_gsem_prepare_WLS.Rd man/umx_check_parallel.Rd man/umxMRDoC.Rd man/umx_polytriowise.Rd man/umx_as_numeric.Rd man/umxGetModel.Rd man/umxBrownie.Rd man/umxSummaryACE.Rd man/umxSummaryACEcov.Rd man/plot.MxModelTwinMaker.Rd man/xmu_describe_data_WLS.Rd man/xmu_gsem_subset_covstruc.Rd man/umxThresholdMatrix.Rd man/tmx_show.Rd man/umxFactorScores.Rd man/xmu_clean_label.Rd man/umx_is_endogenous.Rd man/plot.umx_GWAS.Rd man/xmu_twin_upgrade_selDvs2SelVars.Rd man/fin_stock_target.Rd man/umx_check_names.Rd man/umx_make_TwinData.Rd man/umxSummary.MxDataStatic.Rd man/umx_explode.Rd man/RMSEA.summary.mxmodel.Rd man/umxGSEM_sim_snps.Rd man/umx_has_means.Rd man/fin_stock_valuation.Rd man/geometric_mean.Rd man/umxExpMeans.Rd man/fin_value_interest.Rd man/xmu_ace_de_apply_censor_thresholds.Rd man/prolific_read_demog.Rd man/umxPlotGxEbiv.Rd man/xmu_check_variance.Rd man/xmu_catml_df3_diagnostic.Rd man/umxDoC.Rd man/umx_long2wide.Rd man/umx_grep.Rd man/xmuPropagateLabels.Rd man/umx_make_fake_data.Rd man/umx_tail.Rd man/umxSummarizeTwinData.Rd man/umx_is_cov.Rd man/xmu_require_summary_mxData.Rd man/umx_read_lower.Rd man/umx_score_scale.Rd man/xmu_robust_ML_fit.Rd man/umxGSEM_GWAS.Rd man/umx_is_ordered.Rd man/umxExpCov.Rd man/umx_scale_reliabilities.Rd man/xmu_check_levels_identical.Rd man/xmu_dot_mat2dot.Rd man/umx_set_plot_format.Rd man/harmonic_mean.Rd man/umxReduceGxE.Rd man/umx_set_cores.Rd man/umxCP.Rd man/umx_scale_wide_twin_data.Rd man/xmu_DF_to_mxData_TypeCov.Rd man/umx_set_checkpoint.Rd man/umxSummary.list.Rd man/umx_move_file.Rd man/fin_options_LeapSimulate.Rd man/xgh_check_base_name.Rd man/xmu_WLS_align_jacobian.Rd man/umxFactor.Rd man/xmuMaxLevels.Rd man/umxGSEM.Rd man/prolific_scoring_stub.Rd man/xmu_threshold_id_RAM.Rd man/umxRenameMatrix.Rd man/HSwls.Rd man/loadings.MxModel.Rd man/xmu_custom_completer.Rd man/xmu_mxRefModels.Rd man/umx_is_class.Rd man/rad2deg.Rd man/umxLav2RAM.Rd man/umxSummary.Rd man/umx_is_MxData.Rd man/xmu_threshold_id_twin_check.Rd man/umxACE_GLM.Rd man/umxGetLatents.Rd man/xmu_PadAndPruneForDefVars.Rd man/xmu_mxData_summary.Rd man/xmu_catml_wls_v.Rd man/xmu_rclabel_2_bracket_address.Rd man/umxSetParameters.Rd man/umx_explode_twin_names.Rd man/umxRAM_DE.Rd man/umx_str_chars.Rd man/xmu_matrix_for_print.Rd man/umxEFA.Rd man/umxEquate.Rd man/umxPlotACEv.Rd man/umx_string_to_algebra.Rd man/umxMatrix.Rd man/RMSEA.Rd man/umxModify.Rd man/umx_time.Rd man/fin_options_teach.Rd man/xmu_make_mxData.Rd man/umxRotate.Rd man/qm.Rd man/umxExamples.Rd man/umx_set_data_variance_check.Rd man/umx_set_auto_plot.Rd man/umx_rename_file.Rd man/umx_has_square_brackets.Rd man/umxDiagnose.Rd man/print.RMSEA.Rd man/umxPower.Rd man/xmu_show_fit_or_comparison.Rd man/xmu_standardize_ACEv.Rd man/fin_value_percent.Rd man/umxFitIndices.Rd man/xmu_standardize_LISREL.Rd man/umx_yj_wide_twin_data.Rd man/umxPrint_double_entry_data.Rd man/xmu_openmx_engine_status.Rd man/xmuTwinSuper_Continuous.Rd man/xmu_wls_display_chi.Rd man/xmu_standardize_SexLim.Rd man/umxDiffMZ.Rd man/xmu_wls_block_diag.Rd man/xmuLabel_MATRIX_Model.Rd man/umxSummaryMRDoC.Rd man/xmuLabel_Matrix.Rd man/umx_set_auto_run.Rd man/xmu_compare_WLS.Rd man/umx_lower.tri.Rd man/umx_write_to_clipboard.Rd man/umx_is_GSEM.Rd man/umxPlotACE.Rd man/fin_value_NPV.Rd man/fin_tax_NI.Rd man/umxMI.Rd man/tvars.Rd man/umxCov2cor.Rd man/umxFixAll.Rd man/umx_str_from_object.Rd man/deg2rad.Rd man/xmu_start_value_list.Rd man/iqdat.Rd man/xmu_CI_stash.Rd man/umx_means.Rd man/umx_trim.Rd man/fin_stock_justifiedPE.Rd man/xmu_savalei_polycor_blocks.Rd man/umx_is_numeric.Rd man/xmu_dot_define_shapes.Rd man/umxModel.Rd man/xmu_standardize_CP.Rd man/umxGxEbiv.Rd man/xmu_twin_get_var_names.Rd man/xmu_mx_make_run.Rd man/xmu_genomicmx_binary_url.Rd man/umxSummaryDoC.Rd man/xmu_wls_data_models.Rd man/umxSuperModel.Rd man/xmu_has_summary_mxData.Rd man/umxACE.Rd man/umxSummaryIP.Rd man/print.percent.Rd man/umxJiggle.Rd man/umx_make.Rd man/umxPlotPredict.Rd man/xmu_standardize_Simplex.Rd man/fin_stock_ticker.Rd man/umxIP.Rd man/umxGSEM_munge.Rd man/power.ACE.test.Rd man/tmx_show.MxModelGSEM.Rd man/aic_weights.Rd man/plot.MxModel.Rd man/umxSummary.MxLISRELModel.Rd man/umx_make_GxE_data.Rd man/xmuMinLevels.Rd man/libs.Rd man/fin_tax_FIF.Rd man/xmuMakeTwoHeadedPathsFromPathList.Rd man/umxTwoStage.Rd man/tmx_show.MxModel.Rd man/xmu_ace_de_parse_censor_meta.Rd man/umxMeasurementInvariance.Rd man/us_skinfold_data.Rd man/xmu_parse_completion_context.Rd man/gh_message_search.Rd man/xmu_dot_make_paths.Rd man/xmu_make_TwinSuperModel.Rd man/xmu_catml_discrepancy_at_WLS.Rd man/dl_from_dropbox.Rd man/fin_options_plotGreeks.Rd man/mx_make.Rd man/xmu_WLS_align_weight.Rd man/xmu_savalei_fit_tli.Rd man/xgh_git.Rd man/umxCLPM.Rd man/gh_feature_branch.Rd man/umx_get_checkpoint.Rd man/umxParan.Rd man/umxWeightedAIC.Rd man/xmu_make_bin_cont_pair_data.Rd man/xmu_twin_add_WeightMatrices.Rd man/umxSummaryACE_DE.Rd man/umxCI.Rd man/umxPlotSexLim.Rd man/umxAlgebra.Rd man/xmu_compare_robust_ML.Rd man/xmu_is_wls.Rd man/umx_check_model.Rd man/fin_stock_CAGR.Rd man/umx_detect_cores.Rd man/umx_fun_mean_sd.Rd man/umx_data.Rd man/umx_complete_dollar.Rd man/fin_resolveVolatility.Rd man/xmu_wls_extract_WV.Rd man/umx_set_table_format.Rd man/xmu_compare_constraint_note.Rd man/xmuTwinSuper_NoBinary.Rd man/umx_rename.Rd man/umxGSEM_std.Rd man/xmu_umxSummary_print_matrix.Rd man/umx_stack.Rd man/xmu_gsem_extract_snp_path.Rd man/print.oddsratio.Rd man/umx_reorder.Rd man/umx_make_raw_from_cov.Rd man/umx.Rd man/plot.percent.Rd man/gh_open_PR_url.Rd man/umx_strings2numeric.Rd man/xmu_catml_implied_correlation.Rd man/xmu_path_regex.Rd man/umx_standardize.Rd man/xmu_path2twin.Rd man/xmu_CI_merge.Rd man/xmu_check_needs_means.Rd man/umx_find_object.Rd man/umxCI_boot.Rd man/umxRAM2Lav.Rd man/xmu_utils_completeToken.Rd man/umx_residualize.Rd man/xmuMI.Rd man/xmuHasSquareBrackets.Rd man/umx_set_separator.Rd man/umx_wide2longTwinData.Rd man/extractAIC.MxModel.Rd man/xmu_dot_maker.Rd man/xmuRAM2Ordinal.Rd man/umxSummarySexLim.Rd man/xmu_equate_threshold_values.Rd man/docData.Rd man/prolific_anonymize.Rd man/umx_pad.Rd man/umxMatrixFree.Rd man/xmu_invert_matrix.Rd man/umx_make_twin_data_nice.Rd man/install.OpenMx.Rd man/xmu_bracket_address2rclabel.Rd man/umx_is_exogenous.Rd man/umx_names.Rd man/umx_merge_randomized_columns.Rd man/Fischbein_wt.Rd man/umxSummaryGxE.Rd man/umxDoCp.Rd man/xmu_ram_de_apply_censor_thresholds.Rd man/umx_msg.Rd man/umx_check_OS.Rd man/umx_set_optimization_options.Rd man/umx_ICA_report.Rd man/xmu_match.arg.Rd man/xmu_cell_is_on.Rd man/umxACEv.Rd man/umxPlotGxE.Rd man/xmu_update_covar.Rd man/tmx_genotypic_effect.Rd man/xmu_dot_rank_str.Rd man/umxCompare.Rd man/umx_open.Rd man/umx_tutorials.Rd man/umxAPA.Rd man/GFF.Rd man/FishersMethod.Rd man/umxPlotACE_GLM.Rd man/xmu_savalei_fit_cfi.Rd man/umx_select_valid.Rd man/umxSummaryGxEbiv.Rd man/umxDiscTwin.Rd man/umx_aggregate.Rd man/umxHetCor.Rd man/residuals.MxModel.Rd man/xmu_catml_eval_model.Rd man/umx_set_dollar_symbol.Rd man/umx_is_MxMatrix.Rd man/umx_log_wide_twin_data.Rd man/xmu_savalei_fit_rmsea.Rd man/umx_polychoric.Rd man/umx_cor.Rd man/umxRAM.Rd man/umx_APA_pval.Rd man/umxSummaryACEv.Rd man/umxGSEM_sumstats.Rd man/umxPlotIP.Rd man/xmu_twin_check.Rd man/umxVersion.Rd man/umx_has_CIs.Rd man/umxSummarySimplex.Rd man/umx_wide4lmer.Rd man/xmu_standardize_ACE.Rd man/umxSexLim.Rd man/tmx_is.identified.Rd man/xmu_name_from_lavaan_str.Rd man/umx_print.Rd man/umxGetManifests.Rd man/xmu_dot_rank.Rd man/umxPlotDoC.Rd man/xmu_is_ordinal_WLS.Rd man/umxACEcov.Rd man/umxPlotACE_DE.Rd man/umx_get_bracket_addresses.Rd man/umxTwinMaker.Rd man/umx_rot.Rd man/umxConfint.Rd man/umx_make_MR_data.Rd man/umx_round.Rd man/xmu_openmx_install_message.Rd man/umx_check.Rd man/fin_options_Greeks.Rd man/umxGSEM_ldsc.Rd man/umxSimplex.Rd man/umx_polypairwise.Rd man/xmuMakeOneHeadedPathsFromPathList.Rd man/umxPlotFun.Rd man/xmu_savalei_null_scaling_factor.Rd man/umx_cont_2_quantiles.Rd man/xmuTwinUpgradeMeansToCovariateModel.Rd man/umxLISREL.Rd man/umx_set_optimizer.Rd man/print.reliability.Rd man/xgh_get_current_branch.Rd man/umxRun.Rd man/xmu_dot_move_ranks.Rd man/umxSummary.MxModelGLM.Rd man/umx_var.Rd man/umx_set_silent.Rd man/umx_r_test.Rd man/umxGSEM_dl_tutorial_files.Rd man/xmuLabel_RAM_Model.Rd man/figures/DiffMZRainMud.R man/figures/Duncan.pdf man/figures/GxEbiv.pdf man/figures/reflective.pdf man/figures/umxEFA.pdf man/figures/formative.pdf man/figures/ACEmatrix.pdf man/figures/power.pdf man/figures/TSLS.pdf man/figures/simplex.pdf man/figures/ACEunivariate.pdf man/figures/DiscTwinsExample.pdf man/figures/ACEcovVarianceModel.pdf man/figures/DiffMZRainMud.pdf man/figures/DiffMZexample.pdf man/figures/DoC.pdf man/figures/CP.pdf man/figures/ACEcovOnMeans.pdf man/figures/ACEv.pdf man/figures/GxE.pdf man/figures/discordantCausalPatterns.pdf man/figures/IP.pdf man/figures/discordantCausalPatterns.R man/figures/sketch.pdf