ArticleScientific reports2019
VIVA (VIsualization of VAriants): A VCF File Visualization Tool.
Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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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.
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Who cites it
15 citing papers in PubMed.
- Integrative Genomic Mapping and Visualization From Curated Public Datasets Reveals Germline RB1 Variant Diversity in Retinoblastoma.Investigative ophthalmology & visual science · 2026Article
- Tsbrowse: an interactive browser for ancestral recombination graphs.Bioinformatics (Oxford, England) · 2025Article
- The Fire Ant Social Chromosome Exerts a Major Influence on Genome Regulation.Molecular biology and evolution · 2025Article
- GenoSee: a novel visualization tool for graphical genotypes.Breeding science · 2024Article
- Variant graph craft (VGC): a comprehensive tool for analyzing genetic variation and identifying disease-causing variants.BMC bioinformatics · 2024Article
- VCF observer: a user-friendly software tool for preliminary VCF file analysis and comparison.BMC bioinformatics · 2024Article
- SCI-VCF: a cross-platform GUI solution to summarize, compare, inspect and visualize the variant call format.NAR genomics and bioinformatics · 2024Article
- Evolutionary genomics of socially polymorphic populations of Pogonomyrmex californicus.BMC biology · 2024Article
- NeuroVar: an open-source tool for the visualization of gene expression and variation data for biomarkers of neurological diseases.GigaByte (Hong Kong, China) · 2024Article
- Critical assessment of on-premise approaches to scalable genome analysis.BMC bioinformatics · 2023Article
- HAPPE: A Tool for Population Haplotype Analysis and Visualization in Editable Excel Tables.Frontiers in plant science · 2022Article
- MutScape: an analytical toolkit for probing the mutational landscape in cancer genomics.NAR genomics and bioinformatics · 2021Article
- Single-cell sequencing of the small and AT-skewed genome of malaria parasites.Genome medicine · 2021Article
- COBRE for Computational Biology of Human Disease at Brown University: Progress and Prospects.Rhode Island medical journal (2013) · 2021Article
- re-Searcher: GUI-based bioinformatics tool for simplified genomics data mining of VCF files.PeerJ · 2021Article
Corrections and comments
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Authors and funding
9 authors.
Funding
Abstract
High-throughput sequencing produces an extraordinary amount of genomic data that is organized into a number of high-dimension datasets. Accordingly, visualization of genomic data has become essential for quality control, exploration, and data interpretation. The Variant Call Format (VCF) is a text file format generated during the variant calling process that contains genomic information and locations of variants in a group of sequenced samples. The current workflow for visualization of genomic variant data from VCF files requires use of a combination of existing tools. Here, we describe VIVA (VIsualization of VAriants), a command line utility and Jupyter Notebook based tool for evaluating and sharing genomic data for variant analysis and quality control of sequencing experiments from VCF files. VIVA combines the functionality of existing tools into a single command to interactively evaluate and share genomic data, as well as create publication quality graphics.
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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.