Evidence map›Paper›PMID 31368486›Full record

ArticleBioinformatics (Oxford, England)2019

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

Abstract read
In one paragraph

Article in Bioinformatics (Oxford, England), 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Maurits J J DijkstraDepartment of Computer Science, Vrije Universiteit, 1081 HV Amsterdam, The Netherlands.
Atze J van der PloegDepartment of Computer Science, Vrije Universiteit, 1081 HV Amsterdam, The Netherlands.
K Anton FeenstraDepartment of Computer Science, Vrije Universiteit, 1081 HV Amsterdam, The Netherlands.
Wan J FokkinkDepartment of Computer Science, Vrije Universiteit, 1081 HV Amsterdam, The Netherlands.
Sanne AbelnDepartment of Computer Science, Vrije Universiteit, 1081 HV Amsterdam, The Netherlands.
Jaap HeringaDepartment of Computer Science, Vrije Universiteit, 1081 HV Amsterdam, The Netherlands.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

summaryPRALINE 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/.

Indexed as

SoftwareDNAProtein Structure, SecondarySequence AlignmentDNA

Identifiers

PMID31368486
PMCPMC6954659

What OpenQuestion holds

Textmetadata
LicenceCC BY
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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.