Nucleotide conversion sequencing experiments have been
developed to add a temporal dimension to RNA-seq and single-cell RNA-seq. Such
experiments require specialized tools for primary processing such as GRAND-SLAM,
(see 'Jürges et al' <doi:10.1093/bioinformatics/bty256>) and specialized tools for
downstream analyses. 'grandR' provides a comprehensive toolbox for quality control,
kinetic modeling, differential gene expression analysis and visualization of such data.
| Version: |
0.2.6 |
| Depends: |
R (≥ 3.5.0) |
| Imports: |
stats, Matrix, rlang, ggplot2, grDevices, patchwork, RCurl, plyr, parallel, reshape2, MASS, scales, cowplot, minpack.lm, lfc, labeling, methods, utils, numDeriv |
| Suggests: |
knitr, rmarkdown, circlize, Seurat, ComplexHeatmap, ggrepel, DESeq2, S4Vectors, data.table, clusterProfiler, biomaRt, msigdbr, fgsea, rclipboard, cubature, DT, shinyjs, shinyjqui, RColorBrewer, gsl, htmltools, matrixStats, monocle, VGAM, quantreg, graphics, shiny, ggrastr, viridisLite, deSolve |
| Published: |
2025-01-22 |
| DOI: |
10.32614/CRAN.package.grandR |
| Author: |
Florian Erhard 
[aut, cre],
Teresa Rummel [ctb],
Lygeri Sakellaridi [ctb],
Kevin Berg [ctb] |
| Maintainer: |
Florian Erhard <Florian.Erhard at informatik.uni-regensburg.de> |
| BugReports: |
https://github.com/erhard-lab/grandR/issues |
| License: |
Apache License (≥ 2) |
| URL: |
https://github.com/erhard-lab/grandR |
| NeedsCompilation: |
yes |
| Citation: |
grandR citation info |
| Materials: |
README, NEWS |
| CRAN checks: |
grandR results |