bioseq: A Toolbox for Manipulating Biological Sequences

Classes and functions to work with biological sequences (DNA, RNA and amino acid sequences). Implements S3 infrastructure to work with biological sequences as described in Keck (2020) <doi:10.1111/2041-210X.13490>. Provides a collection of functions to perform biological conversion among classes (transcription, translation) and basic operations on sequences (detection, selection and replacement based on positions or patterns). The package also provides functions to import and export sequences from and to other package formats.

Version:	0.1.5
Depends:	R (≥ 3.1.0)
Imports:	methods, vctrs, tibble, ape, crayon, dplyr, pillar, stringi, stringr, stringdist, readr, rlang
Suggests:	knitr, rmarkdown, testthat (≥ 2.1.0), covr
Published:	2025-09-29
DOI:	10.32614/CRAN.package.bioseq
Author:	Francois Keck [aut, cre, cph]
Maintainer:	Francois Keck <francois.keck at gmail.com>
BugReports:	https://github.com/fkeck/bioseq/issues
License:	GPL-3
URL:	https://fkeck.github.io/bioseq/
NeedsCompilation:	no
Citation:	bioseq citation info
Materials:	README, NEWS
In views:	Omics
CRAN checks:	bioseq results

Documentation:

Reference manual:	bioseq.html , bioseq.pdf
Vignettes:	Introduction to the 'bioseq' package (source, R code) Cleaning and exploring NCBI data with the 'bioseq' package (source, R code)

Downloads:

Package source:	bioseq_0.1.5.tar.gz
Windows binaries:	r-devel: bioseq_0.1.5.zip, r-release: bioseq_0.1.5.zip, r-oldrel: bioseq_0.1.5.zip
macOS binaries:	r-release (arm64): bioseq_0.1.5.tgz, r-oldrel (arm64): bioseq_0.1.5.tgz, r-release (x86_64): bioseq_0.1.5.tgz, r-oldrel (x86_64): bioseq_0.1.5.tgz
Old sources:	bioseq archive

Reverse dependencies:

Reverse imports:	mobileRNA, refdb
Reverse suggests:	tidysq

Linking:

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