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: 1.0.0
Depends: R (≥ 3.5.0)
Imports: Rcpp (≥ 1.0.5), stringr (≥ 1.4.0)
LinkingTo: Rcpp
Suggests: testthat (≥ 3.1.0), rmarkdown, knitr
Published: 2022-01-12
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
SystemRequirements: C++11
Materials: README
CRAN checks: edlibR results

Documentation:

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

Downloads:

Package source: edlibR_1.0.0.tar.gz
Windows binaries: r-devel: edlibR_1.0.0.zip, r-devel-UCRT: edlibR_1.0.0.zip, r-release: edlibR_1.0.0.zip, r-oldrel: edlibR_1.0.0.zip
macOS binaries: r-release (arm64): edlibR_1.0.0.tgz, r-release (x86_64): edlibR_1.0.0.tgz, r-oldrel: not available

Linking:

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