# ReporterScore

    library(ReporterScore)
    #> [38;5;246mIf you use the ReporterScore package in published research, please cite:
    #>
    #> Chen Peng, Qiong Chen, Shangjin Tan, Xiaotao Shen, Chao Jiang, Generalized reporter score-based enrichment analysis for omics data, Briefings in Bioinformatics, Volume 25, Issue 3, May 2024, bbae116, https://doi.org/10.1093/bib/bbae116 [39m

# ‘ReporterScore’

Generalized Reporter Score-based Enrichment Analysis for Omics Data

## Citation

To cite ‘ReporterScore’ in publications use:

C. Peng, Q. Chen, S. Tan, X. Shen, C. Jiang, Generalized Reporter Score-based Enrichment Analysis for Omics Data. Briefings in Bioinformatics (2024). https://doi.org/10.1093/bib/bbae116.

Please go to https://github.com/Asa12138/ReporterScore for more details.

## Install

    if (!require("devtools")) install.packages("devtools")
    devtools::install_github("Asa12138/pcutils")
    devtools::install_github("Asa12138/ReporterScore")
    library(ReporterScore)

# Need helps?

If you have any questions/issues, please visit github issue tracker.

# Session information

Here is the output of sessionInfo() on the system on which this document was compiled:

    sessionInfo()
    #> R version 4.5.1 (2025-06-13)
    #> Platform: aarch64-apple-darwin20
    #> Running under: macOS Sonoma 14.7
    #>
    #> Matrix products: default
    #> BLAS:   /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libRblas.0.dylib
    #> LAPACK: /Library/Frameworks/R.framework/Versions/4.5-arm64/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: Asia/Shanghai
    #> tzcode source: internal
    #>
    #> attached base packages:
    #> [1] stats     graphics  grDevices utils     datasets  methods   base
    #>
    #> other attached packages:
    #> [1] ReporterScore_0.2.5
    #>
    #> loaded via a namespace (and not attached):
    #>  [1] vctrs_0.6.5        cli_3.6.5          knitr_1.50         rlang_1.1.6
    #>  [5] xfun_0.52          generics_0.1.4     S7_0.2.0           jsonlite_2.0.0
    #>  [9] glue_1.8.0         pcutils_0.2.9      htmltools_0.5.8.1  sass_0.4.10
    #> [13] scales_1.4.0       rmarkdown_2.29     grid_4.5.1         evaluate_1.0.4
    #> [17] jquerylib_0.1.4    tibble_3.3.0       fastmap_1.2.0      yaml_2.3.10
    #> [21] lifecycle_1.0.4    compiler_4.5.1     dplyr_1.1.4        RColorBrewer_1.1-3
    #> [25] pkgconfig_2.0.3    rstudioapi_0.17.1  farver_2.1.2       digest_0.6.37
    #> [29] R6_2.6.1           tidyselect_1.2.1   pillar_1.11.0      magrittr_2.0.3
    #> [33] bslib_0.9.0        gtable_0.3.6       tools_4.5.1        ggplot2_4.0.1
    #> [37] cachem_1.1.0

# Reference

1. Patil, K. R. & Nielsen, J. Uncovering transcriptional regulation of metabolism by using metabolic network topology. Proc Natl Acad Sci U S A 102, 2685–2689 (2005).

2. L. Liu, R. Zhu, D. Wu, Misuse of reporter score in microbial enrichment analysis. iMeta. 2, e95 (2023).

3. https://github.com/wangpeng407/ReporterScore