refdb: A DNA Reference Library Manager

Reference database manager offering a set of functions to import, organize, clean, filter, audit and export reference genetic data. Provide functions to download sequence data from Bold Systems (<https://www.boldsystems.org/>) and NCBI GenBank <https://www.ncbi.nlm.nih.gov/genbank/>. Designed as an environment for semi-automatic and assisted construction of reference databases and to improve standardization and repeatability in barcoding and metabarcoding studies.

Version: 0.1.1
Depends: R (≥ 3.1.0)
Imports: tibble, readr, dplyr, stringr, tidyr, rentrez, bold, taxize, xml2, bioseq, ape, igraph, ggplot2, ggraph, yaml, rlang, rmarkdown, leaflet
Suggests: testthat (≥ 3.0.0), covr, DT, knitr, forcats
Published: 2022-09-22
Author: Francois Keck ORCID iD [aut, cre, cph]
Maintainer: Francois Keck <francois.keck at gmail.com>
BugReports: https://github.com/fkeck/refdb/issues
License: GPL-3
URL: https://fkeck.github.io/refdb/
NeedsCompilation: no
Materials: README
CRAN checks: refdb results

Documentation:

Reference manual: refdb.pdf
Vignettes: Introduction to the refdb package
Downloading and combining data from NCBI Genbank and BOLD

Downloads:

Package source: refdb_0.1.1.tar.gz
Windows binaries: r-devel: refdb_0.1.1.zip, r-release: refdb_0.1.1.zip, r-oldrel: refdb_0.1.0.zip
macOS binaries: r-release (arm64): refdb_0.1.1.tgz, r-oldrel (arm64): refdb_0.1.1.tgz, r-release (x86_64): refdb_0.1.1.tgz, r-oldrel (x86_64): refdb_0.1.1.tgz
Old sources: refdb archive

Linking:

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