SurprisalAnalysis: Information Theoretic Analysis of Gene Expression Data
Implements Surprisal analysis for gene expression data such as RNA-seq or microarray experiments. Surprisal analysis is an information-theoretic method that decomposes gene expression data into a baseline state and constraint-associated deviations, capturing coordinated gene expression patterns under different biological conditions. References: Kravchenko-Balasha N. et al. (2014) <doi:10.1371/journal.pone.0108549>. Zadran S. et al. (2014) <doi:10.1073/pnas.1414714111>. Su Y. et al. (2019) <doi:10.1371/journal.pcbi.1007034>. Bogaert K. A. et al. (2018) <doi:10.1371/journal.pone.0195142>.
| Version: | 0.2 |
| Imports: | tidyr,dplyr,matlib,org.Mm.eg.db,org.Hs.eg.db,clusterProfiler,AnnotationDbi,tidyverse,shiny,ggplot2,latex2exp,shinythemes,shinyWidgets,shinyjs,shinycssloaders,patchwork,DT,httpuv |
| Suggests: | knitr,rmarkdown,pheatmap,peakRAM,data.table |
| Published: | 2025-09-10 |
| DOI: | 10.32614/CRAN.package.SurprisalAnalysis |
| Author: | Annice Najafi [aut, cre] |
| Maintainer: | Annice Najafi <annicenajafi27 at gmail.com> |
| License: | MIT + fileLICENSE |
| NeedsCompilation: | no |
| Materials: | README |
| CRAN checks: | SurprisalAnalysis results |
Documentation:
| Reference manual: | SurprisalAnalysis.html ,SurprisalAnalysis.pdf |
| Vignettes: | Comparisons of Normalization Methods (source,R code) Run Time Recording (source,R code) Surprisal analysis guidelines (source,R code) |
Downloads:
| Package source: | SurprisalAnalysis_0.2.tar.gz |
| Windows binaries: | r-devel:SurprisalAnalysis_0.2.zip, r-release:SurprisalAnalysis_0.2.zip, r-oldrel:SurprisalAnalysis_0.2.zip |
| macOS binaries: | r-release (arm64):SurprisalAnalysis_0.2.tgz, r-oldrel (arm64): not available, r-release (x86_64): not available, r-oldrel (x86_64):SurprisalAnalysis_0.2.tgz |
Linking:
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