Package: tricycle
Type: Package
Title: tricycle: Transferable Representation and Inference of cell
        cycle
Version: 1.19.0
Authors@R: c(
        person("Shijie", "Zheng", role=c("aut", "cre"), email="shijieczheng@gmail.com"))
Description: The package contains functions to infer and visualize cell
        cycle process using Single Cell RNASeq data. It exploits the
        idea of transfer learning, projecting new data to the previous
        learned biologically interpretable space. We provide a
        pre-learned cell cycle space, which could be used to infer cell
        cycle time of human and mouse single cell samples. In addition,
        we also offer functions to visualize cell cycle time on
        different embeddings and functions to build new reference.
Depends: R (>= 4.0), SingleCellExperiment
Imports: methods, circular, ggplot2, ggnewscale, AnnotationDbi, scater,
        GenomicRanges, IRanges, S4Vectors, scattermore, dplyr,
        RColorBrewer, grDevices, stats, SummarizedExperiment, utils
Suggests: testthat (>= 3.0.0), BiocStyle, knitr, rmarkdown, CircStats,
        cowplot, htmltools, Seurat, org.Hs.eg.db, org.Mm.eg.db
License: GPL-3
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: FALSE
RoxygenNote: 7.1.2
biocViews: SingleCell, Software, Transcriptomics, RNASeq,
        Transcription, BiologicalQuestion, DimensionReduction,
        ImmunoOncology
URL: https://github.com/hansenlab/tricycle
BugReports: https://github.com/hansenlab/tricycle/issues
Config/pak/sysreqs: libcairo2-dev libfontconfig1-dev libfreetype6-dev
        libfribidi-dev libharfbuzz-dev libicu-dev libjpeg-dev
        libpng-dev libtiff-dev libwebp-dev libssl-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2025-10-29 15:08:17 UTC
RemoteUrl: https://github.com/bioc/tricycle
RemoteRef: HEAD
RemoteSha: 54701be1e20844634264a2458d5db542ed12bd99
NeedsCompilation: no
Packaged: 2026-03-07 08:14:38 UTC; root
Author: Shijie Zheng [aut, cre]
Maintainer: Shijie Zheng <shijieczheng@gmail.com>
Built: R 4.6.0; ; 2026-03-07 08:17:23 UTC; windows
