Intro

This is a starter file for your “Computational Notebook” script. This script be used to run analyses using the data file(s). This script should be separate from the “Prepare Data” file that is used for update the data file(s). Every time you run the “Computational Notebook” file with the exact same data, you should get the exact same findings (i.e., reproducibility). Thus, we keep the “Prepare Data script” separate from the “Computational Notebook” file so that you update the data only when you intend to.

This document is a Quarto Notebook, which is an example of a computational notebook. Best practices for using Markdown are in the Lab Wiki here: https://devpsylab.github.io/DataAnalysis/markdown.html#bestPractices. Steps for working with computational notebooks are located in the Lab Wiki here: https://devpsylab.github.io/DataAnalysis/markdown.html#computationalNotebook

This document is a Quarto Notebook. Quarto enables you to weave together content and executable code into a finished document. When you execute code within the notebook, the results appear beneath the code. This allows you to share your analyses and results with others so that they can see the results in line with the code for reproducibility. Make sure to have only one sentence per line. For more information on the value of computational notebooks, see the article titled “The Scientific Paper Is Obsolete”. To learn more about Quarto see https://quarto.org.

Preamble

Install Libraries

In [1]:

Code

#install.packages("remotes")
#remotes::install_github("DevPsyLab/petersenlab")

Load Libraries

In [2]:

Code


library("petersenlab") #located here: https://github.com/DevPsyLab/petersenlab
library("tidyverse")

── Attaching core tidyverse packages ──────────────────────── tidyverse 2.0.0 ──
✔ dplyr     1.2.1     ✔ readr     2.2.0
✔ forcats   1.0.1     ✔ stringr   1.6.0
✔ ggplot2   4.0.3     ✔ tibble    3.3.1
✔ lubridate 1.9.5     ✔ tidyr     1.3.2
✔ purrr     1.2.2     
── Conflicts ────────────────────────────────────────── tidyverse_conflicts() ──
✖ dplyr::filter() masks stats::filter()
✖ dplyr::lag()    masks stats::lag()
ℹ Use the conflicted package (<http://conflicted.r-lib.org/>) to force all conflicts to become errors

Code


library("sysfonts")
library("showtext")

Loading required package: showtextdb

Import Font for Figures

To use the fonts, download and install the fonts located here¹: https://drive.google.com/drive/u/0/folders/1fqlrnEe7NFnWZoIrsHmr8ulDS4nhs-H3

In [3]:

Code


#Add Gotham Fonts
#sysfonts::font_add(
#  family = "Gotham",
#  regular = "Gotham-Book.otf",
#  bold = "Gotham-Bold.otf",
#  italic = "Gotham-BookItalic.otf",
#  bolditalic = "Gotham-BoldItalic.otf")
#
#showtext::showtext_auto()

Load Data

Specify Variables

Analyses

Session Info

In [4]:

Code

sessionInfo()

R version 4.5.3 (2026-03-11)
Platform: x86_64-pc-linux-gnu
Running under: Ubuntu 24.04.4 LTS

Matrix products: default
BLAS:   /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 
LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblasp-r0.3.26.so;  LAPACK version 3.12.0

locale:
 [1] LC_CTYPE=C.UTF-8       LC_NUMERIC=C           LC_TIME=C.UTF-8       
 [4] LC_COLLATE=C.UTF-8     LC_MONETARY=C.UTF-8    LC_MESSAGES=C.UTF-8   
 [7] LC_PAPER=C.UTF-8       LC_NAME=C              LC_ADDRESS=C          
[10] LC_TELEPHONE=C         LC_MEASUREMENT=C.UTF-8 LC_IDENTIFICATION=C   

time zone: UTC
tzcode source: system (glibc)

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] showtext_0.9-8    showtextdb_3.0    sysfonts_0.8.9    lubridate_1.9.5  
 [5] forcats_1.0.1     stringr_1.6.0     dplyr_1.2.1       purrr_1.2.2      
 [9] readr_2.2.0       tidyr_1.3.2       tibble_3.3.1      ggplot2_4.0.3    
[13] tidyverse_2.0.0   petersenlab_1.2.3

loaded via a namespace (and not attached):
 [1] tidyselect_1.2.1    psych_2.6.3         viridisLite_0.4.3  
 [4] farver_2.1.2        S7_0.2.2            fastmap_1.2.0      
 [7] digest_0.6.39       rpart_4.1.24        timechange_0.4.0   
[10] lifecycle_1.0.5     cluster_2.1.8.2     magrittr_2.0.5     
[13] compiler_4.5.3      rlang_1.2.0         Hmisc_5.2-5        
[16] tools_4.5.3         yaml_2.3.12         data.table_1.18.2.1
[19] knitr_1.51          htmlwidgets_1.6.4   mnormt_2.1.2       
[22] plyr_1.8.9          RColorBrewer_1.1-3  foreign_0.8-91     
[25] withr_3.0.2         nnet_7.3-20         grid_4.5.3         
[28] stats4_4.5.3        lavaan_0.6-21       xtable_1.8-8       
[31] colorspace_2.1-2    scales_1.4.0        MASS_7.3-65        
[34] cli_3.6.6           mvtnorm_1.3-7       rmarkdown_2.31     
[37] reformulas_0.4.4    generics_0.1.4      rstudioapi_0.18.0  
[40] reshape2_1.4.5      tzdb_0.5.0          minqa_1.2.8        
[43] DBI_1.3.0           splines_4.5.3       parallel_4.5.3     
[46] base64enc_0.1-6     mitools_2.4         vctrs_0.7.3        
[49] boot_1.3-32         Matrix_1.7-4        jsonlite_2.0.0     
[52] hms_1.1.4           Formula_1.2-5       htmlTable_2.5.0    
[55] glue_1.8.1          nloptr_2.2.1        stringi_1.8.7      
[58] gtable_0.3.6        quadprog_1.5-8      lme4_2.0-1         
[61] pillar_1.11.1       htmltools_0.5.9     R6_2.6.1           
[64] Rdpack_2.6.6        mix_1.0-13          evaluate_1.0.5     
[67] pbivnorm_0.6.0      lattice_0.22-9      rbibutils_2.4.1    
[70] backports_1.5.1     Rcpp_1.1.1-1.1      gridExtra_2.3      
[73] nlme_3.1-168        checkmate_2.3.4     xfun_0.57          
[76] pkgconfig_2.0.3

Rstudio Version

In [5]:

Code

#rstudioapi::versionInfo()

You may need to ask Dr. Petersen to get access to this file.↩︎