Package: HDStIM
Type: Package
Title: High Dimensional Stimulation Immune Mapping ('HDStIM')
Version: 0.1.0
Authors@R: 
    c(person(given = "Rohit",
             family = "Farmer",
             role = c("aut", "cre"),
             email = "rohit.farmer@gmail.com",
             comment = c(ORCID = "0000-0003-4197-3047")),
      person(given = "Richard",
             family = "Apps",
             role = "aut",
             email = "richard.apps@nih.gov",
             comment = c(ORCID = "0000-0001-5140-0141")),
      person(given = "John",
             family = "Tsang",
             role = c("aut","pdr"),
             email = "john.tsang@nih.gov",
             comment = c(ORCID = "0000-0003-3186-3047")))
Description: A method for identifying responses to experimental stimulation in mass or flow cytometry that uses high dimensional analysis of measured parameters and can be performed with an end-to-end unsupervised approach. In the context of in vitro stimulation assays where high-parameter cytometry was used to monitor intracellular response markers, using cell populations annotated either through automated clustering or manual gating for a combined set of stimulated and unstimulated samples, 'HDStIM' labels cells as responding or non-responding. The package also provides auxiliary functions to rank intracellular markers based on their contribution to identifying responses and generating diagnostic plots.
License: CC0 | file LICENSE
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
RoxygenNote: 7.1.2
URL: https://github.com/niaid/HDStIM, https://niaid.github.io/HDStIM/
BugReports: https://github.com/niaid/HDStIM/issues
Depends: R (>= 3.6.0)
Imports: tibble, ggplot2, uwot, dplyr, tidyr, broom, tidyselect,
        ggridges, Boruta, scales
Suggests: knitr, rmarkdown, testthat
VignetteBuilder: knitr, rmarkdown
Language: en-US
NeedsCompilation: no
Packaged: 2022-06-23 18:04:20 UTC; farmerr2
Author: Rohit Farmer [aut, cre] (<https://orcid.org/0000-0003-4197-3047>),
  Richard Apps [aut] (<https://orcid.org/0000-0001-5140-0141>),
  John Tsang [aut, pdr] (<https://orcid.org/0000-0003-3186-3047>)
Maintainer: Rohit Farmer <rohit.farmer@gmail.com>
Repository: CRAN
Date/Publication: 2022-06-24 08:10:12 UTC
Built: R 4.6.0; ; 2026-04-26 02:13:24 UTC; unix
