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
Repository: https://saadat-abu.r-universe.dev
Date/Publication: 2025-12-28 21:24:43 UTC
RemoteUrl: https://github.com/SAADAT-Abu/Capsule
RemoteRef: HEAD
RemoteSha: 5d47c2cde3de3093a4aeff7d81c2bec84666ce31
NeedsCompilation: no
Packaged: 2026-10-18 10:31:37 UTC; root
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>