# 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 4.2.2 (2022-10-31)
    #> Platform: aarch64-apple-darwin20 (64-bit)
    #> Running under: macOS Ventura 13.0.1
    #>
    #> Matrix products: default
    #> BLAS:   /Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libRblas.0.dylib
    #> LAPACK: /Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libRlapack.dylib
    #>
    #> locale:
    #> [1] C/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
    #>
    #> attached base packages:
    #> [1] stats     graphics  grDevices utils     datasets  methods   base
    #>
    #> other attached packages:
    #> [1] ReporterScore_0.1.6
    #>
    #> loaded via a namespace (and not attached):
    #>  [1] rstudioapi_0.14  knitr_1.45       magrittr_2.0.3   munsell_0.5.0
    #>  [5] tidyselect_1.2.0 colorspace_2.1-0 R6_2.5.1         rlang_1.1.3
    #>  [9] fastmap_1.1.0    fansi_1.0.6      dplyr_1.1.4      pcutils_0.2.6
    #> [13] tools_4.2.2      grid_4.2.2       gtable_0.3.4     xfun_0.42
    #> [17] utf8_1.2.4       cli_3.6.2        jquerylib_0.1.4  htmltools_0.5.4
    #> [21] yaml_2.3.6       digest_0.6.31    tibble_3.2.1     lifecycle_1.0.4
    #> [25] ggplot2_3.5.0    sass_0.4.9       vctrs_0.6.5      glue_1.7.0
    #> [29] cachem_1.0.6     evaluate_0.19    rmarkdown_2.25   compiler_4.2.2
    #> [33] bslib_0.4.2      pillar_1.9.0     scales_1.3.0     generics_0.1.3
    #> [37] jsonlite_1.8.4   pkgconfig_2.0.3

# 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