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edlibR: R Integration for Edlib, the C/C++ Library for Exact Pairwise Sequence Alignment using Edit (Levenshtein) Distance

Bindings to edlib, a lightweight performant C/C++ library for exact pairwise sequence alignment using edit distance (Levenshtein distance). The algorithm computes the optimal alignment path, but also can be used to find only the start and/or end of the alignment path for convenience. Edlib was designed to be ultrafast and require little memory, with the capability to handle very large sequences. Three alignment methods are supported: global (Needleman-Wunsch), infix (Hybrid Wunsch), and prefix (Semi-Hybrid Wunsch). The original C/C++ library is described in "Edlib: a C/C++ library for fast, exact sequence alignment using edit distance", M. Šošić, M. Šikić, <doi:10.1093/bioinformatics/btw753>.

Version: 1.0.2
Depends: R (≥ 3.5.0)
Imports: Rcpp (≥ 1.0.5), stringr (≥ 1.4.0)
LinkingTo: Rcpp
Suggests: testthat (≥ 3.1.0), rmarkdown, knitr
Published: 2024-02-23
DOI: 10.32614/CRAN.package.edlibR
Author: Martin Šošić [aut], Evan Biederstedt [aut, cre]
Maintainer: Evan Biederstedt <evan.biederstedt at gmail.com>
BugReports: https://github.com/evanbiederstedt/edlibR/issues
License: MIT + file LICENSE
URL: https://github.com/evanbiederstedt/edlibR
NeedsCompilation: yes
Materials: README
CRAN checks: edlibR results

Documentation:

Reference manual: edlibR.pdf
Vignettes: "EdlibR: R interface to edlib"

Downloads:

Package source: edlibR_1.0.2.tar.gz
Windows binaries: r-devel: edlibR_1.0.2.zip, r-release: edlibR_1.0.2.zip, r-oldrel: edlibR_1.0.2.zip
macOS binaries: r-release (arm64): edlibR_1.0.2.tgz, r-oldrel (arm64): edlibR_1.0.2.tgz, r-release (x86_64): edlibR_1.0.2.tgz, r-oldrel (x86_64): edlibR_1.0.2.tgz
Old sources: edlibR archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=edlibR to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.