Package: gateR
Type: Package
Title: Flow/Mass Cytometry Gating via Spatial Kernel Density Estimation
Version: 0.1.16
Date: 2025-08-29
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: 7.3.2
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
Config/pak/sysreqs: libgdal-dev gdal-bin libgeos-dev libproj-dev
        libsqlite3-dev
Repository: https://lance-waller-lab.r-universe.dev
Date/Publication: 2025-08-29 04:33:01 UTC
RemoteUrl: https://github.com/lance-waller-lab/gater
RemoteRef: HEAD
RemoteSha: 35c062788f917cfadf6e9c1de434d52223376651
NeedsCompilation: no
Packaged: 2026-09-16 10:05:20 UTC; root
Author: Ian D. Buller [aut, cre, cph] (ORCID:
    <https://orcid.org/0000-0001-9477-8582>),
  Elena Hsieh [ctb] (ORCID: <https://orcid.org/0000-0003-3969-6597>),
  Debashis Ghosh [ctb] (ORCID: <https://orcid.org/0000-0001-6618-1316>),
  Lance A. Waller [ctb] (ORCID: <https://orcid.org/0000-0001-5002-8886>),
  NCI [cph]