Work

Edlib: a C/C ++ library for fast, exact sequence alignment using edit distance

Year: 2016

Type: article

Abstract: Summary: We present Edlib, an open-source C/C ++ library for exact pairwise sequence alignment using edit distance. We compare Edlib to other libraries and show that it is the fastest while not lacking in functionality and can also easily handle very large sequences. Being easy to use, flexible, fast and low on memory usage, we expect it to be easily adopted as a building block for future bioinformatics tools. Availability and Implementation: Source code, installation instructions and test data are freely available for download at https://github.com/Martinsos/edlib, under the MIT licence. Edlib is implemented in C/C ++ and supported on Linux, MS Windows, and Mac OS. Contact: [email protected]. Supplementary information: Supplementary data are available at Bioinformatics online.

Source: Bioinformatics

DOI: 10.1093/bioinformatics/btw753

Authors: Martin Šošić, Mile Šikić

Institutions: University of Zagreb, Faculty of Electrical Engineering and Computing in Zagreb, Agency for Science, Technology and Research, Bioinformatics Institute

Language: English

Topic: Genomics and Phylogenetic Studies

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: hybrid

Estimated APC paid: $3,989

Funder: Hrvatska Zaklada za Znanost