An independent, reproducible, and flexible Spatially Resolved Transcriptomics (SRT) simulation framework that can be used to facilitate the development of SRT analytical methods for a wide variety of SRT-specific analyses. It utilizes spatial localization information to simulate SRT expression count data in a reproducible and scalable fashion. Two major simulation schemes are implemented in 'SRTsim': reference-based and reference-free.
| Version: | 0.99.7 |
| Depends: | R (≥ 3.5.0), methods |
| Imports: | concaveman,sf,sp,spatstat.geom, parallel,pdist,MASS,S4Vectors, stats,Matrix,Morpho,matrixStats,plotly,shiny,viridis,shinydashboard,dashboardthemes,shinyBS,ggplot2,ggpubr,DT,spatstat.random,magrittr,FNN,dplyr,magick |
| Suggests: | knitr,rmarkdown,BiocStyle,RefManageR,BiocManager,sessioninfo |
| Published: | 2024-08-21 |
| DOI: | 10.32614/CRAN.package.SRTsim |
| Author: | Jiaqiang Zhu [aut, ctb, cre], Lulu Shang [aut], Xiang Zhou [aut] |
| Maintainer: | Jiaqiang Zhu <jiaqiang at umich.edu> |
| License: | GPL (≥ 3) |
| NeedsCompilation: | no |
| CRAN checks: | SRTsim results[issues need fixing before 2025-12-17] |