Package: OmicsLake
Title: OmicsLake: Versioned, On-Disk Omics Data Management for
        Bioconductor
Version: 0.99.4
Authors@R: person(given = "Yusuke", family = "Matsui", role = c("aut", "cre"), email = "mail.to.matsui@gmail.com", comment = c(ORCID = "0000-0003-3977-4313"))
Author: Yusuke Matsui [aut, cre]
Maintainer: Yusuke Matsui <mail.to.matsui@gmail.com>
Description: A lightweight framework for versioned, on-disk omics data
        management using DuckDB, Arrow, and Parquet. It provides
        read/write-style functions, snapshots, and version-aware
        dataset lineage for tracked or explicitly annotated workflows.
        Adapters preserve supported Bioconductor containers, including
        SummarizedExperiment and MultiAssayExperiment, while retaining
        queryable tabular components.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.5.0)
Imports: jsonlite, arrow, dplyr, dbplyr, DBI, duckdb, Matrix,
        SummarizedExperiment, S4Vectors, R6, rlang, tools, methods,
        withr
Suggests: MultiAssayExperiment, HDF5Array, DelayedArray, knitr,
        rmarkdown, testthat (>= 3.0.0), igraph, yaml, bench, grDevices,
        graphics, stats, utils, SingleCellExperiment, GenomicRanges,
        Spectra, MsExperiment, QFeatures, xcms, Chromatograms, renv,
        tibble, pkgdown
VignetteBuilder: knitr
biocViews: Infrastructure, DataImport, DataRepresentation
URL: https://github.com/matsui-lab/OmicsLake
BugReports: https://github.com/matsui-lab/OmicsLake/issues
RoxygenNote: 7.3.3
NeedsCompilation: no
Packaged: 2026-10-11 15:41:05 UTC; root
Config/pak/sysreqs: cmake libicu-dev libssl-dev xz-utils zlib1g-dev
Repository: https://matsui-lab.r-universe.dev
Date/Publication: 2026-08-11 07:05:40 UTC
RemoteUrl: https://github.com/matsui-lab/OmicsLake
RemoteRef: HEAD
RemoteSha: 2b6c840ec5328021e4432efd6722d97cd678aad5