Single Cell Transcriptomics-Level Cytokine Activity Prediction and Estimation R package scaper version 0.2.0 Generates cell-level cytokine activity estimates using relevant information from gene sets constructed with the 'CytoSig' and the 'Reactome' databases and scored using the modified 'Variance-adjusted Mahalanobis (VAM)' framework for single-cell RNA-sequencing (scRNA-seq) data. 'CytoSig' database is described in: Jiang at al., (2021) <doi:10.1038/s41592-021-01274-5>. 'Reactome' database is described in: Gillespie et al., (2021) <doi:10.1093/nar/gkab1028>. The 'VAM' method is outlined in: Frost (2020) <doi:10.1093/nar/gkaa582>. Software Depends: R (>= 3.5.0) Imports: magrittr, xml2, stringr, dplyr, Seurat, SeuratObject, VAM, utils Suggests: knitr, pheatmap, rmarkdown, usethis Azka Javaid <azka.javaid.gr@dartmouth.edu> Comprehensive R Archive Network (CRAN) H. Robert Frost [aut], Azka Javaid [aut, cre] GPL (>= 2) 2025-04-16 application/tgz https://CRAN.R-project.org/package=scaper doi:10.32614/CRAN.package.scaper