Tailor-made multiple sequence alignments using the PRALINE 2 alignment toolkit

Maurits J J Dijkstra; Atze J van der Ploeg; K Anton Feenstra; Wan J Fokkink; Sanne Abeln; Jaap Heringa

doi:10.1093/bioinformatics/btz572

Tailor-made multiple sequence alignments using the PRALINE 2 alignment toolkit

Bioinformatics. 2019 Dec 15;35(24):5315-5317. doi: 10.1093/bioinformatics/btz572.

Authors

Maurits J J Dijkstra¹, Atze J van der Ploeg¹, K Anton Feenstra¹, Wan J Fokkink¹, Sanne Abeln¹, Jaap Heringa¹

Affiliation

¹ Department of Computer Science, Vrije Universiteit, 1081 HV Amsterdam, The Netherlands.

Abstract

Summary: PRALINE 2 is a toolkit for custom multiple sequence alignment workflows. It can be used to incorporate sequence annotations, such as secondary structure or (DNA) motifs, into the alignment scoring, as well as to customize many other aspects of a progressive multiple alignment workflow.

Availability and implementation: PRALINE 2 is implemented in Python and available as open source software on GitHub: https://github.com/ibivu/PRALINE/.

MeSH terms

DNA
Protein Structure, Secondary
Sequence Alignment
Software*

Substances

DNA