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: |
0.99.6 |
| 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, spatstat.random, magrittr, FNN, dplyr |
| Suggests: |
knitr, rmarkdown, BiocStyle, RefManageR, BiocManager, sessioninfo |
| Published: |
2023-01-13 |
| 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 |