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, .


Reference manual

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1.0.0 by Evan Biederstedt, 16 days ago


Report a bug at https://github.com/evanbiederstedt/edlibR/issues

Browse source code at https://github.com/cran/edlibR

Authors: Martin Šošić [aut] , Evan Biederstedt [aut, cre]

Documentation:   PDF Manual  

MIT + file LICENSE license

Imports Rcpp, stringr

Suggests testthat, rmarkdown, knitr

Linking to Rcpp

System requirements: C++11

See at CRAN