ArticleBMC bioinformatics2018
phylotree.js - a JavaScript library for application development and interactive data visualization in phylogenetics.
Article in BMC bioinformatics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
What it found
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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.
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.
Who cites it
46 citing papers in PubMed.
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- Hyper-specialized primates possess a reduced suite of xenobiotic-metabolizing cytochrome P450 genes.Molecular phylogenetics and evolution · 2026Article
- PHA synthase variant design using a conditional variational autoencoder.PLoS computational biology · 2026Article
- DOO: integrated multi-omics resources for deep ocean organisms.Nucleic acids research · 2026Article
- Datamonkey 3: browser-native molecular evolution analysis.Frontiers in bioinformatics · 2026Article
- A comprehensive phylogenomic framework for cycads (Cycadales).PhytoKeys · 2026Article
- Genome-wide characterization of the PPR gene family and its potential roles in stress responses and chloroplast RNA editing inFrontiers in plant science · 2026Article
- PaVE 2.0: Behind the Scenes of the Papillomavirus Episteme.Journal of molecular biology · 2025Article
- Elucidating the evolutionary dynamics of parasitism in Cuscuta: in-depth phylogenetic reconstruction and extensive plastomes reduction.BMC genomics · 2025Article
- MoPSeq-DB: a user-friendly web application for genomic data management and analysis of marine mollusc pathogens.Database : the journal of biological databases and curation · 2025Article
- ScRAPdb: an integrated pan-omics database for the Saccharomyces cerevisiae reference assembly panel.Nucleic acids research · 2025Article
- jdispatcher-viewers: interactive visualizations of sequence similarity search results and domain predictions.Bioinformatics advances · 2025Article
- EzSEA: an interactive web interface for enzyme sequence evolution analysis.Bioinformatics advances · 2025Article
- Mitochondrial genomes of the European sardine (Sardina pilchardus) reveal Pliocene diversification, extensive gene flow and pervasive purifying selection.Scientific reports · 2024Article
- Article
- Positive selection, genetic recombination, and intra-host evolution in novel equine coronavirus genomes and other members of theMicrobiology spectrum · 2024Article
- Evolutionary genomic analyses of canineApplied and environmental microbiology · 2024Article
- The EMBL-EBI Job Dispatcher sequence analysis tools framework in 2024.Nucleic acids research · 2024Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
backgroundWhile several JavaScript packages for visualizing phylogenetic trees exist, most are best characterized as frameworks that are designed with a specific set of tasks in mind. Extending such packages to use cases that are not available as features often ends up being difficult. Moreover, existing packages tend to produce standalone widgets that are not designed to serve as middleware, as opposed to flexible tools that can integrate with other components of an application.
resultsphylotree.js is a library that extends the popular data visualization framework d3.js, and is suitable for building JavaScript applications where users can view and interact with phylogenetic trees. The effects of such interactions can be captured and communicated to other package components, making it possible to engineer complex and responsive applications that include phylogenetic trees. phylotree.js implements several abstractions in addition to features, and comes with a documented application programming interface, thus promoting interoperability and extensibility. Example applications include a tool to visualize and annotate phylogenetic trees, a web application for comparative sequence analysis, a structural viewer that interacts with a large phylogenetic tree, and an interactive tanglegram.
conclusionsphylotree.js is a useful tool and application module for a variety of computational biology software applications. The code is available on Github and is released under the MIT license.
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Registered trials
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.