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Introduction to halfBaked

Jared Andrews

St. Jude Children’s Research Hospital

18 June 2025

Source: vignettes/halfBaked.Rmd
halfBaked.Rmd

Basics

Install halfBaked 

if (!requireNamespace("BiocManager", quietly = TRUE)) {
    install.packages("BiocManager")
}

BiocManager::install("j-andrews7/halfBaked")

Session info 

#> R version 4.5.1 (2025-06-13)
#> Platform: x86_64-pc-linux-gnu
#> Running under: Ubuntu 24.04.2 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] BiocStyle_2.36.0
#> 
#> loaded via a namespace (and not attached):
#>  [1] digest_0.6.37       desc_1.4.3          R6_2.6.1           
#>  [4] bookdown_0.43       fastmap_1.2.0       xfun_0.52          
#>  [7] cachem_1.1.0        knitr_1.50          htmltools_0.5.8.1  
#> [10] rmarkdown_2.29      lifecycle_1.0.4     cli_3.6.5          
#> [13] pkgdown_2.1.3       sass_0.4.10         textshaping_1.0.1  
#> [16] jquerylib_0.1.4     systemfonts_1.2.3   compiler_4.5.1     
#> [19] tools_4.5.1         ragg_1.4.0          evaluate_1.0.3     
#> [22] bslib_0.9.0         yaml_2.3.10         BiocManager_1.30.26
#> [25] jsonlite_2.0.0      rlang_1.1.6         fs_1.6.6