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

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

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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/.SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Original language	English
Pages (from-to)	5315-5317
Number of pages	3
Journal	Bioinformatics (Oxford, England)
Volume	35
Issue number	24
DOIs	https://doi.org/10.1093/bioinformatics/btz572
Publication status	Published - 15 Dec 2019

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10.1093/bioinformatics/btz572Licence: CC BY

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title = "Tailor-made multiple sequence alignments using the PRALINE 2 alignment toolkit",

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/.SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.",

author = "Dijkstra, {Maurits J J} and {van der Ploeg}, {Atze J} and Feenstra, {K Anton} and Fokkink, {Wan J} and Sanne Abeln and Jaap Heringa",

note = "{\textcopyright} The Author(s) 2019. Published by Oxford University Press.",

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doi = "10.1093/bioinformatics/btz572",

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AU - Dijkstra, Maurits J J

AU - van der Ploeg, Atze J

AU - Feenstra, K Anton

AU - Fokkink, Wan J

AU - Abeln, Sanne

AU - Heringa, Jaap

PY - 2019/12/15

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N2 - 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/.SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

AB - 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/.SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

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DO - 10.1093/bioinformatics/btz572

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JO - Bioinformatics (Oxford, England)

JF - Bioinformatics (Oxford, England)

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ER -

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

Abstract

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