Vermeent et al. (2023)

Open Science Workflow Preregistration Registered Report Supplement Data Scripts Analysis Objects Codebooks

Data Processing Scripts

There are four types of R-scripts in this repository, each with a separate folder.

• custom_functions/: Custom R-functions written for this project
• 0_simulations/: Simulation scripts for power and DDM analyses
• 1_data_prep/: Data processing scripts
• 2_analyses/: Primary and exploratory analysis scripts

Each script takes an input(s) and produces output(s). All outputs are stored in analysis_objects/. The tables below provides an overview of the inputs and outputs of each script.

Simulations

script	input	output
ddm_missing_imputation.R	lmt_cleandata_suffix.csv	results_sim5.RData ddm_sim5_results.RData
ddm_trial_simulations.R		ddm_sim1_results.RData ddm_sim2_results.RData ddm_sim3_results.RData
ddm_validity_checks.R		ddm_sim4_results.RData
power_analysis.R		power.RData

Data Prep

script	input	output
1_preprocessing.R	baseline_year_1_arm_1’full.names=TRUE NIHTB’full.names=TRUE	>str_subsetpattern=‘Narrow_Structure’ NIHTB’full.names=TRUE
2_clean_data.R	tasks_raw.RData	lmt_clean.csv flanker_clean.csv pcps_clean.csv dccs_clean.csv exclusions.RData
3_data_subsets.R	lmt_clean.csv flanker_clean.csv pcps_clean.csv dccs_clean.csv	training_set.csv test_set.csv

Analyses

script	input	output
1_ddm_fit.R	lmt_cleandata_suffix.csv flanker_cleandata_suffix.csv pcps_cleandata_suffix.csv dccs_cleandata_suffix.csv	rhat_lmt_mod1.RData ddm_lmt_mod1.RData rhat_flanker_mod2.RData ddm_lmt_mod2.RData rhat_flanker_mod1.RData ddm_flanker_mod1.RData rhat_flanker_mod2.RData ddm_flanker_mod2.RData rhat_pcps_mod1.RData ddm_pcps_mod1.RData rhat_pcps_mod2.RData ddm_pcps_mod2.RData rhat_dccs_mod1.RData ddm_dccs_mod1.RData ddm_dccs_mod2.RData rhat_dccs_mod2.RData rhat_flanker_mod1.RData mcmc_flanker_mod_explddm_flanker_mod_explfile=‘ddm_flanker_mod_expl2.RData’
2_ivs.R	training_setdata_suffix.csv test_setdata_suffix.csv mnlfa_ivs.csv	>
3_ddm_extract_results.R	lmt_cleandata_suffix.csv flanker_cleandata_suffix.csv pcps_cleandata_suffix.csv dccs_cleandata_suffix.csv ddm_lmt_mod1.RData ddm_lmt_mod2.RData ddm_flanker_mod1.RData ddm_flanker_mod2.RData ddm_dccs_mod1.RData ddm_dccs_mod2.RData ddm_pcps_mod1.RData ddm_pcps_mod2.RData ddm_flanker_mod_expl3.RData ddm_flanker_mod_expl4.RData ddm_dccs_mod_expl.RData	ddm_lmt_mod1_parsed.RData ddm_lmt_mod2_parsed.RData ddm_flanker_mod1_parsed.RData ddm_flanker_mod2_parsed.RData ddm_dccs_mod1_parsed.RData ddm_dccs_mod2_parsed.RData ddm_pcps_mod1_parsed.RData ddm_pcps_mod2_parsed.RData ddm_data.csv ddm_lmt_mod1_orig_parsed.RData ddm_lmt_mod2_orig_parsed.RData ddm_flanker_mod1_orig_parsed.RData ddm_flanker_mod2_orig_parsed.RData ddm_dccs_mod1_orig_parsed.RData ddm_dccs_mod2_orig_parsed.RData ddm_pcps_mod1_orig_parsed.RData ddm_pcps_mod2_orig_parsed.RData ddm_flanker_mod_expl_parsed3.RData ddm_dccs_mod_expl_parsed.RData ddm_data_expl.csv
4_sem_training.R	ddm_data.csv’ iv_datadata_suffix.csv training_setdata_suffix.csv	results_sem_training.RData
5_sem_test.R	ddm_data.csv’ iv_datadata_suffix.csv test_setdata_suffix.csv	test_sem_full_clustertest_factor_input: results_sem_test.RData
6_exploratory.R	test_set.csv iv_data.csv lmt_clean.csv ddm_data.csv’ test_set.csv results_sem_test.RData’	exploratory_results.RData