Package: bioIOT
Type: Package
Title: Inverse Optimal Transport for Single-Cell Trajectory Analysis
Version: 0.2.1
Authors@R: person(given = "Han", family = "Dong", role = c("aut", "cre"),
    email = "dh411424@163.com", comment = c(Nickname = "XTSgreen"))
Description: Semi-relaxed inverse optimal transport ('IOT') for
        single-cell state-transition and 'pseudotime' analysis: a
        self-contained R solver (Anderson-accelerated soft 'Sinkhorn'
        with exact implicit gradients), feature-weight fitting with a
        two-stage bias-corrected refit and multi-restart, state
        transition matrices, random-walk 'pseudotime', 'ggplot2'
        visualisation, soft-gated Seurat and 'SingleCellExperiment'
        interfaces, reproducible simulated demo data, and bulk-cohort
        pathway scoring utilities.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.0.0)
Imports: utils, ggplot2
Suggests: testthat (>= 3.0.0), knitr, rmarkdown, SingleCellExperiment,
        Seurat, SummarizedExperiment, S4Vectors
URL: https://github.com/XTSgreen/bioIOT-R
BugReports: https://github.com/XTSgreen/bioIOT-R/issues
VignetteBuilder: knitr
Config/testthat/edition: 3
Repository: https://xtsgreen.r-universe.dev
Date/Publication: 2026-09-04 14:11:25 UTC
RemoteUrl: https://github.com/xtsgreen/bioiot-r
RemoteRef: HEAD
RemoteSha: 1efea6cda88a03941a985b8b17002432323a57d3
NeedsCompilation: no
Packaged: 2026-09-25 09:56:53 UTC; root
Author: Han Dong [aut, cre] (Nickname: XTSgreen)
Maintainer: Han Dong <dh411424@163.com>