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.
The annotationTable function enhances the reporting of table of genes or gene ontology term.
A few utility functions to enhances the reporting of top tables for glmnet, lognet, elnet, pam and pam classification confusion are available.
## R version 4.4.0 beta (2024-04-15 r86425)
## Platform: x86_64-pc-linux-gnu
## Running under: Ubuntu 22.04.4 LTS
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## Matrix products: default
## BLAS: /home/biocbuild/bbs-3.19-bioc/R/lib/libRblas.so
## LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.10.0
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## locale:
## [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
## [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
## [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
## [7] LC_PAPER=en_US.UTF-8 LC_NAME=C
## [9] LC_ADDRESS=C LC_TELEPHONE=C
## [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
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## time zone: America/New_York
## tzcode source: system (glibc)
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## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
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## other attached packages:
## [1] a4Reporting_1.52.0
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## loaded via a namespace (and not attached):
## [1] digest_0.6.35 R6_2.5.1 fastmap_1.1.1 xfun_0.43
## [5] cachem_1.0.8 knitr_1.46 htmltools_0.5.8.1 rmarkdown_2.26
## [9] lifecycle_1.0.4 cli_3.6.2 xtable_1.8-4 sass_0.4.9
## [13] jquerylib_0.1.4 compiler_4.4.0 tools_4.4.0 evaluate_0.23
## [17] bslib_0.7.0 yaml_2.3.8 rlang_1.1.3 jsonlite_1.8.8