tinydenseR/DESCRIPTION at main · Novartis/tinydenseR · GitHub

1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
Package: tinydenseR
Title: Linking Cell-To-Cell Variation to Sample-to-Sample Variation
Version: 0.0.1.0013
Authors@R:
    person("Pedro", "Milanez-Almeida", , "pedro.milanez@novartis.com", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0001-8285-957X"))
Description: tinydenseR is a landmark-based platform for single cell data analysis that identifies differentially abundant cell types and differentially expressed features, including subtle within-cluster state changes. Modeling samples as replicates, tinydenseR enhances analytic efficiency and reproducibility while preserving the richness of single cell data.
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
VignetteBuilder: knitr
Depends:
    R (>= 4.1)
LazyData: true
Suggests:
    testthat (>= 3.0.0),
    ggiraph,
    rmarkdown,
    ggpubr,
    rstatix,
    hexbin
Config/testthat/edition: 3
Imports:
    curl,
    dplyr,
    edgeR,
    ggh4x,
    ggnewscale,
    ggplot2,
    gridExtra,
    GSVA,
    harmony,
    igraph,
    irlba,
    knitr,
    limma,
    Matrix,
    matrixStats,
    methods,
    parallel,
    patchwork,
    pheatmap,
    qvalue,
    RhpcBLASctl,
    rlang,
    scales,
    scattermore,
    SeuratObject,
    sparseMatrixStats,
    stats,
    SummarizedExperiment,
    swfdr,
    symphony,
    S4Vectors,
    tidyr,
    tidyselect,
    uwot,
    utils