Package: COMPASS
Type: Package
Title: Combinatorial Polyfunctionality Analysis of Single Cells
Version: 1.48.0
Date: 2014-07-11
Author: Lynn Lin, Kevin Ushey, Greg Finak, Ravio Kolde (pheatmap)
Authors@R: c( person("Lynn", "Lin", role="aut", email="llin@fhcrc.org"),
    person("Kevin", "Ushey", role="aut", email="kushey@fhcrc.org"),
    person("Greg", "Finak", role=c("aut","cre"), email="gfinak@fhcrc.org"),
    person("Raivo", "Kolde", role="ctb", email="rkolde@gmail.com",
    comment="Author of 'pheatmap', which was modified and now used internally
    in COMPASS") )
Description: COMPASS is a statistical framework that enables unbiased
        analysis of antigen-specific T-cell subsets. COMPASS uses a
        Bayesian hierarchical framework to model all observed
        cell-subsets and select the most likely to be antigen-specific
        while regularizing the small cell counts that often arise in
        multi-parameter space. The model provides a posterior
        probability of specificity for each cell subset and each
        sample, which can be used to profile a subject's immune
        response to external stimuli such as infection or vaccination.
License: Artistic-2.0
BugReports: https://github.com/RGLab/COMPASS/issues
VignetteBuilder: knitr
Depends: R (>= 3.0.3)
LinkingTo: Rcpp (>= 0.11.0)
Maintainer: Greg Finak <gfinak@fhcrc.org>
Imports: methods, Rcpp, data.table, RColorBrewer, scales, grid, plyr,
        knitr, abind, clue, grDevices, utils, pdist, magrittr,
        reshape2, dplyr, tidyr, rlang, BiocStyle, rmarkdown, foreach,
        coda
Suggests: flowWorkspace (>= 3.33.1), flowCore, ncdfFlow, shiny,
        testthat, devtools, flowWorkspaceData, ggplot2, progress
LazyLoad: yes
LazyData: yes
biocViews: ImmunoOncology, FlowCytometry
Encoding: UTF-8
RoxygenNote: 7.1.1
Config/pak/sysreqs: make libicu-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 14:18:03 UTC
RemoteUrl: https://github.com/bioc/COMPASS
RemoteRef: RELEASE_3_22
RemoteSha: 70d9f7d6a75f2835974dcb631f81913f068d4542
NeedsCompilation: yes
Packaged: 2026-01-22 18:25:37 UTC; root
Built: R 4.5.2; x86_64-w64-mingw32; 2026-01-22 18:27:27 UTC; windows
Archs: x64
