Package: VoltRon

Type: Package

Title: VoltRon for Spatial Omics Data Integration and Analysis

Version: 0.2.0

Depends: R (>= 4.3.0)

Author@R: 

    person("Artür", "Manukyan", 

             role=c("aut", "cre"),

           email="artur-man@hotmail.com", 

           comment=c(ORCID="0000-0002-0441-9517")),

    person("Ella", "Bahry", 

             role=c("aut")),

    person("Raj Prateek", "Rai", 

             role=c("aut")),

    person("Wei-che", "Ko", 

             role=c("aut")),

    person("Markus", "Landthaler", 

             role=c("aut")),

    person("Altuna", "Akalin", 

             role=c("aut"))

Author: Artür Manukyan, Ella Bahry, Raj Prateek Rai, Wei-Che Ko, Markus Landthaler, Altuna Akalin

Maintainer: Artür Manukyan <artur-man@hotmail.com>

Description: VoltRon is a spatial omic analysis toolbox for multi-omics integration using spatial image registration. VoltRon is capable of analyzing multiple types and modalities of spatially-aware datasets. VoltRon visualizes and analyzes regions of interests (ROIs), spots, cells, molecules and event tiles.

License: MIT + file LICENSE

SystemRequirements: OpenCV 4.8 (or higher): libopencv-dev (Debian, Ubuntu) or opencv-devel (Fedora)

Encoding: UTF-8

RoxygenNote: 7.3.2

biocViews:

Imports: methods, grDevices, data.table, Matrix, S4Arrays, ids, RcppAnnoy, 

         RANN, igraph, dplyr, ggplot2, ggrepel, ggpubr, rjson, magick, 

         EBImage, sp, rlang, shiny, shinyjs, stringr, irlba, uwot, RCDT

LinkingTo: Rcpp, RcppArmadillo (>= 0.4)

Collate: 

    'RcppExports.R'

    'zzz.R'

    'allgenerics.R'

    'allclasses.R'

    'annotation.R'

    'assay.R'

    'auxiliary.R'

    'clustering.R'

    'conversion.R'

    'data.R'

    'deconvolution.R'

    'differentialexpression.R'

    'image.R'

    'import.R'

    'integration.R'

    'interactive.R'

    'io.R'

    'metadata.R'

    'objects.R'

    'processing.R'

    'registration.R'

    'sample.R'

    'spatial.R'

    'visualization.R'

Suggests:

    testthat (>= 3.0.0),

    S4Vectors,

    DelayedArray,

    rhdf5,

    basilisk,

    reticulate,

    RBioFormats,

    BPCells,

    HDF5Array,

    pizzarr,

    ZarrArray,

    HDF5DataFrame,

    ZarrDataFrame,

    ImageArray,

    viridisLite,

    SpatialExperiment,

    SingleCellExperiment,

    SummarizedExperiment,

    Seurat,

    SeuratObject,

    Giotto,

    DESeq2,

    MuSiC,

    spacexr,

    XML,

    ComplexHeatmap,

    xlsx,

    reshape2,

    tiledb,

    tiledbsc,

    arrow,

    vitessceR,

    geojsonR,

    circlize,

    rstudioapi,

    ggforce,

    ggnewscale,

    anndataR,

    anndata,

Config/testthat/edition: 3

LazyData: true

LazyDataCompression: gzip