Package: grandR
Version: 0.2.7
Title: Comprehensive Analysis of Nucleotide Conversion Sequencing Data
Authors@R: c(
    person("Florian", "Erhard", email = "Florian.Erhard@informatik.uni-regensburg.de", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-3574-6983")),
    person("Teresa", "Rummel", email = "Teresa.Rummel@uni-wuerzburg.de", role = "ctb"),
    person("Julian", "Selke", email = "Julian-Andreas.Selke@informatik.uni-regensburg.de", role = "ctb")
    )
Description: 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.
  Fast Wilcoxon tests are supported via the 'presto' package (available at <https://github.com/immunogenomics/presto>).
Author: Florian Erhard [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-3574-6983>),
  Teresa Rummel [ctb],
  Julian Selke [ctb]
Maintainer: Florian Erhard <Florian.Erhard@informatik.uni-regensburg.de>
License: Apache License (>= 2)
Encoding: UTF-8
URL: https://github.com/erhard-lab/grandR
BugReports: https://github.com/erhard-lab/grandR/issues
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, VGAM, quantreg,
        graphics, shiny, ggrastr, viridisLite, deSolve, presto
RoxygenNote: 7.3.3
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2026-01-14 09:29:32 UTC; erhard
Repository: CRAN
Date/Publication: 2026-01-14 11:10:02 UTC
Built: R 4.4.3; x86_64-w64-mingw32; 2026-03-04 03:47:29 UTC; windows
Archs: x64
