DESCRIPTION

Package: gateR
Type: Package
Title: Flow/Mass Cytometry Gating via Spatial Kernel Density Estimation
Version: 0.1.15
Date: 2024-01-23
Authors@R: 
    c(person(given = "Ian D.",
             family = "Buller",
             role = c("aut", "cre", "cph"),
             email = "ian.buller@alumni.emory.edu",
             comment = c(ORCID = "0000-0001-9477-8582")),
      person(given = "Elena",
             family = "Hsieh",
             role = "ctb",
             email = "elena.hsieh@cuanschutz.edu",
             comment = c(ORCID = "0000-0003-3969-6597")),
      person(given = "Debashis",
             family = "Ghosh",
             role = "ctb",
             email = "debashis.ghosh@cuanschutz.edu",
             comment = c(ORCID = "0000-0001-6618-1316")),
      person(given = "Lance A.",
             family = "Waller",
             role = "ctb",
             email = "lwaller@emory.edu",
             comment = c(ORCID = "0000-0001-5002-8886")),
      person(given = "NCI",
             role = "cph"))
Maintainer: Ian D. Buller <ian.buller@alumni.emory.edu>
Description: Estimates statistically significant marker combination values within
        which one immunologically distinctive group (i.e., disease case) is more associated than
        another group (i.e., healthy control), successively, using various combinations (i.e.,
        "gates") of markers to examine features of cells that may be different between
        groups. For a two-group comparison, the 'gateR' package uses the spatial relative risk
        function estimated using the 'sparr' package. Details about the 'sparr' package
        methods can be found in the tutorial: Davies et al. (2018) <doi:10.1002/sim.7577>. Details
        about kernel density estimation can be found in J. F. Bithell (1990) <doi:10.1002/sim.4780090616>.
        More information about relative risk functions using kernel density estimation can be
        found in J. F. Bithell (1991) <doi:10.1002/sim.4780101112>.
License: Apache License (>= 2.0)
Encoding: UTF-8
LazyData: true
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
Depends: 
    R (>= 3.5.0)
Imports: 
    fields,
    graphics,
    grDevices,
    lifecycle,
    rlang,
    sparr,
    SpatialPack,
    spatstat.geom,
    stats,
    terra,
    tibble
Suggests:
    dplyr,
    R.rsp,
    spelling,
    testthat,
    usethis,
    utils
VignetteBuilder: R.rsp
Language: en-US
URL: https://github.com/lance-waller-lab/gateR
BugReports: https://github.com/lance-waller-lab/gateR/issues