germs-lab/BRCore: v.1.0.0

Stable and reproducible API

Some functionalities are still evolving, but this version represents a major change in workflow and API capabilities.

What's Changed

• Release/1.0.0 by @jibarozzo in https://github.com/germs-lab/BRCore/pull/72
• Update workflow to render only README RMarkdown files by @jibarozzo in https://github.com/germs-lab/BRCore/pull/73

Full Changelog: https://github.com/germs-lab/BRCore/compare/v0.1.0...1.0.0

Highlights

Added functions: R/

• add_rarefaction_metrics()
• plot_abundance_occupancy()
• plot_core_distribution()
• plot_rarefaction_metrics()
• update_otu_table() (previously do_phyloseq())

vignettes/ Static vignette for package documentation. This avoids failures in GH actions (macos runners).

• BRCore-vignette.Rmd
• BRCore-vignette.Rmd.orig
• images/
• precompile.R
• references.bib

Changed:

• identify_core has improved progress messaging, and named list outputs Tests:
• Added suites for added functions.

Selected commits

• 22d4b668f64e49a8405cf1b37bd103bcd538d948: amending previous push: new plotting functions and minor fixes
• 1b8232d10ada5abe75abfc5db1c0d24b176f2489: Finalized vignette for BRCore
• 58d6d30da518f890747d37392271527031354bba: Gains overhaul package and NAMSPACE import in functions.
• 8ef5c789e7a8a998fc0e06340a3262f960128bae : Changed @examplesIf requireNamespace("phyloseq", quietly = TRUE) for the more explicit `@examples
• c7e949b1b548c3035780044da1688a2beaa39611: Gains STATIC vignette

Contributors

Special thanks to @Gian77 for improvements in visualizations functions, tests, and vignette.