Package: Capsule
Type: Package
Title: Comprehensive Reproducibility Framework for R and Bioinformatics
        Analysis
Version: 0.2.0
Authors@R: person(given = "Abu",
                  family = "SAADAT",
                  role = c("aut", "cre"),
                  email = "saadatabu1996@gmail.com",
                  comment = c(ORCID = "https://orcid.org/0000-0001-9636-2513",
                  affiliation = "Università degli Studi della Campania Luigi Vanvitelli"))
Description: A comprehensive reproducibility framework designed for R and bioinformatics
    workflows. Automatically captures the entire analysis environment including R session
    info, package versions, external tool versions ('Samtools', 'STAR', 'BWA', etc.), 'conda'
    environments, reference genomes, data provenance with smart checksumming for large files,
    parameter choices, random seeds, and hardware specifications. Generates executable scripts
    with 'Docker', 'Singularity', and 'renv' configurations. Integrates with workflow managers
    ('Nextflow', 'Snakemake', 'WDL', 'CWL') to ensure complete reproducibility of computational
    research workflows.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.0.0)
Imports: renv, jsonlite, digest, yaml, cli, utils
Suggests: testthat (>= 3.0.0)
BugReports: https://github.com/SAADAT-Abu/Capsule/issues
RoxygenNote: 7.3.3
NeedsCompilation: no
Packaged: 2025-11-06 13:18:57 UTC; saadat
Author: Abu SAADAT [aut, cre] (ORCID: <https://orcid.org/0000-0001-9636-2513>,
    affiliation: Università degli Studi della Campania Luigi
    Vanvitelli)
Maintainer: Abu SAADAT <saadatabu1996@gmail.com>
Repository: CRAN
Date/Publication: 2025-11-11 10:00:29 UTC
Built: R 4.6.0; ; 2026-04-26 13:55:49 UTC; unix
