Date: 2026-04-28

# Vignette of the a4Reporting package

#### 2026-04-28

# 1 Introduction

This document explains the functionalities available in the a4Reporting package.

This package contains utility functions to enhance reporting of data for the Automated Affymetrix Array Analysis suite of packages.

# 2 Create an annotation table

The `annotationTable` function enhances the reporting of table of genes or gene ontology term.

# 3 Top table of classification objects

A few utility functions to enhances the reporting of top tables for `glmnet`, `lognet`, `elnet`, `pam` and `pam` classification confusion are available.

# 4 Appendix

## 4.1 Session information

    ## R version 4.6.0 Patched (2026-04-24 r89963)
    ## Platform: aarch64-apple-darwin23
    ## Running under: macOS Tahoe 26.3.1
    ##
    ## Matrix products: default
    ## BLAS:   /Library/Frameworks/R.framework/Versions/4.6/Resources/lib/libRblas.0.dylib
    ## LAPACK: /Library/Frameworks/R.framework/Versions/4.6/Resources/lib/libRlapack.dylib;  LAPACK version 3.12.1
    ##
    ## locale:
    ## [1] C/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
    ##
    ## time zone: America/New_York
    ## tzcode source: internal
    ##
    ## attached base packages:
    ## [1] stats     graphics  grDevices utils     datasets  methods   base
    ##
    ## other attached packages:
    ## [1] a4Reporting_1.60.0
    ##
    ## loaded via a namespace (and not attached):
    ##  [1] digest_0.6.39   R6_2.6.1        fastmap_1.2.0   xfun_0.57
    ##  [5] cachem_1.1.0    knitr_1.51      htmltools_0.5.9 rmarkdown_2.31
    ##  [9] lifecycle_1.0.5 cli_3.6.6       xtable_1.8-8    sass_0.4.10
    ## [13] jquerylib_0.1.4 compiler_4.6.0  tools_4.6.0     evaluate_1.0.5
    ## [17] bslib_0.10.0    yaml_2.3.12     otel_0.2.0      rlang_1.2.0
    ## [21] jsonlite_2.0.0