Package: MARVEL
Title: Revealing Splicing Dynamics at Single-Cell Resolution
Version: 1.3.0
Description: Alternative splicing represents an additional and underappreciated layer of complexity underlying gene expression profiles. Nevertheless, there remains hitherto a paucity of software to investigate splicing dynamics at single-cell resolution. 'MARVEL' quantifies percent spliced-in (PSI) values for the all exon-level splicing events. Additionally, 'MARVEL' performs differential splicing analysis to identify splicing events whose PSI distribution differ between groups of cells. Finally, 'MARVEL' models the PSI distribution for each event as a beta distribution and categorises each distribution into modalities (inspired by Song (2017) <doi:10.1016/j.molcel.2017.06.003>).
Imports: ggplot2 (>= 3.3.2), methods, scales (>= 1.1.1)
Suggests: AnnotationDbi (>= 1.48.0), Biostrings (>= 2.56.0), BSgenome
        (>= 1.56.0), BSgenome.Hsapiens.NCBI.GRCh38 (>= 1.3.1000),
        clusterProfiler (>= 3.16.0), factoextra (>= 1.0.7), FactoMineR
        (>= 2.3), fitdistrplus (>= 1.1-1), ggnewscale (>= 0.4.5),
        ggrepel (>= 0.9.1), gridExtra (>= 2.3), kableExtra (>= 1.3.1),
        knitr (>= 1.29), kSamples (>= 1.2-9), markdown (>= 1.1), MAST
        (>= 1.16.0), org.Hs.eg.db (>= 3.10.0), org.Mm.eg.db (>=
        3.11.4), parallel, plyr (>= 1.8.4), reshape2 (>= 1.4.4),
        rmarkdown (>= 2.3), stringr (>= 1.4.0), textclean (>= 0.9.3),
        twosamples (>= 1.1.1)
Encoding: UTF-8
Authors@R: person("Sean", "Wen", role = c("aut", "cre"), email = "sean.wenwx@gmail.com")
License: GPL-3
RoxygenNote: 7.2.0
VignetteBuilder: knitr
ByteCompile: true
NeedsCompilation: no
Packaged: 2022-10-28 23:41:48 UTC; seanwen
Author: Sean Wen [aut, cre]
Maintainer: Sean Wen <sean.wenwx@gmail.com>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2022-10-29 09:24:33 UTC
