Package: CytOpT
Type: Package
Title: Optimal Transport for Gating Transfer in Cytometry Data with
        Domain Adaptation
Version: 0.9.8
Date: 2025-03-31
Authors@R: c(person("Boris", "Hejblum", role = c("aut", "cre"), email = "boris.hejblum@u-bordeaux.fr"),
              person("Paul", "Freulon", role = c("aut"), email = "paul.freulon@math.u-bordeaux.fr"),
              person("Kalidou", "Ba", role = c("aut", "trl")))
Maintainer: Boris Hejblum <boris.hejblum@u-bordeaux.fr>
SystemRequirements: Python (>= 3.7)
Description: Supervised learning from a source distribution (with known
        segmentation into cell sub-populations) to fit a target
        distribution with unknown segmentation. It relies regularized
        optimal transport to directly estimate the different cell
        population proportions from a biological sample characterized
        with flow cytometry measurements. It is based on the
        regularized Wasserstein metric to compare cytometry
        measurements from different samples, thus accounting for
        possible mis-alignment of a given cell population across sample
        (due to technical variability from the technology of
        measurements). Supervised learning technique based on the
        Wasserstein metric that is used to estimate an optimal
        re-weighting of class proportions in a mixture model Details
        are presented in Freulon P, Bigot J and Hejblum BP (2023)
        <doi:10.1214/22-AOAS1660>.
License: GPL (>= 2)
URL: https://sistm.github.io/CytOpT-R/,
        https://github.com/sistm/CytOpT-R/
Depends: R (>= 3.6)
LazyData: true
RoxygenNote: 7.3.2
Encoding: UTF-8
Imports: ggplot2 (>= 3.0.0), MetBrewer, patchwork, reshape2,
        reticulate, stats, testthat (>= 3.0.0)
Suggests: rmarkdown, knitr, covr
Config/testthat/edition: 3
VignetteBuilder: knitr
Language: en-US
Config/pak/sysreqs: cmake make libicu-dev libpng-dev libuv1-dev python3
Repository: https://sistm.r-universe.dev
Date/Publication: 2025-03-31 22:03:28 UTC
RemoteUrl: https://github.com/sistm/cytopt-r
RemoteRef: HEAD
RemoteSha: 3981460b3acd799ce196d454999c9c7057f69206
NeedsCompilation: no
Packaged: 2026-06-11 08:47:39 UTC; root
Author: Boris Hejblum [aut, cre],
  Paul Freulon [aut],
  Kalidou Ba [aut, trl]