Generalized Reporter Score-based Enrichment Analysis for Omics Data
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.
If you have any questions/issues, please visit github issue tracker.
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_0.1.4
#>
#> 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_0.2.5
#> [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_0.4.4 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_2.0.3Patil, 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).
L. Liu, R. Zhu, D. Wu, Misuse of reporter score in microbial enrichment analysis. iMeta. 2, e95 (2023).